diff --git a/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.bed b/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.bed new file mode 100644 index 0000000..9c9dcf2 --- /dev/null +++ b/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.bed @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:ed2544f045a08911dae2f77446d7b97f11b22fd9da3f6752787636847e008a1a +size 11097120 diff --git a/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.bib b/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.bib new file mode 100644 index 0000000..0ff6747 --- /dev/null +++ b/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.bib @@ -0,0 +1,37 @@ +@ARTICLE{2023FerrazNatureEcologyEvolution, + title = "{Genomic history of coastal societies from eastern South America}", + author = "Ferraz, Tiago and Suarez Villagran, Ximena and Nägele, Kathrin + and Radzevičiūtė, Rita and Barbosa Lemes, Renan and + Salazar-García, Domingo C and Wesolowski, Verônica and Lopes + Alves, Marcony and Bastos, Murilo and Rapp Py-Daniel, Anne and + Pinto Lima, Helena and Mendes Cardoso, Jéssica and Estevam, + Renata and Liryo, Andersen and Guimarães, Geovan M and Figuti, + Levy and Eggers, Sabine and Plens, Cláudia R and Azevedo Erler, + Dionne Miranda and Valadares Costa, Henrique Antônio and da Silva + Erler, Igor and Koole, Edward and Henriques, Gilmar and Solari, + Ana and Martin, Gabriela and Serafim Monteiro da Silva, Sérgio + Francisco and Kipnis, Renato and Müller, Letícia Morgana and + Ferreira, Mariane and Carvalho Resende, Janine and Chim, Eliane + and da Silva, Carlos Augusto and Borella, Ana Claudia and Tomé, + Tiago and Müller Plumm Gomes, Lisiane and Barros Fonseca, Diego + and Santos da Rosa, Cassia and de Moura Saldanha, João Darcy and + Costa Leite, Lúcio and Cunha, Claudia M S and Viana, Sibeli + Aparecida and Ozorio Almeida, Fernando and Klokler, Daniela and + Fernandes, Henry Luydy Abraham and Talamo, Sahra and DeBlasis, + Paulo and Mendonça de Souza, Sheila and de Paula Moraes, Claide + and Elias Oliveira, Rodrigo and Hünemeier, Tábita and Strauss, + André and Posth, Cosimo", + journal = "Nature ecology \& evolution", + publisher = "Nature Publishing Group", + volume = 7, + number = 8, + pages = "1315--1330", + month = aug, + year = 2023, + url = "https://www.nature.com/articles/s41559-023-02114-9", + doi = "10.1038/s41559-023-02114-9", + pmc = "PMC10406606", + pmid = 37524799, + issn = "2397-334X,2397-334X", + language = "en" +} diff --git a/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.bim b/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.bim new file mode 100644 index 0000000..384f3bc --- /dev/null +++ b/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.bim @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:f3d3c4aaa95fc68acd08d9695f14fc8e777d6078d59a2ca64bdaeb770d135d4e +size 43313767 diff --git a/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.fam b/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.fam new file mode 100644 index 0000000..1ee6c85 --- /dev/null +++ b/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.fam @@ -0,0 +1,34 @@ +Capelinha CAP007_MNT 0 0 1 0 +Cabeçuda CBE003_MNT 0 0 1 0 +Cabeçuda CBE004_MNT 0 0 1 0 +CubatãoI CUB002_MNT 0 0 2 0 +CubatãoI CUB008_MNT 0 0 2 0 +Limão EPS001_MNT 0 0 2 0 +Limão EPS002_MNT 0 0 1 0 +Limão EPS003_MNT 0 0 2 0 +Limão EPS004_MNT 0 0 1 0 +Limão EPS005_MNT 0 0 2 0 +Limão EPS011_MNT 0 0 2 0 +GalhetaIV GA4002_MNT 0 0 2 0 +JabuticabeiraII JBT001_MNT 0 0 2 0 +JabuticabeiraII JBT002_MNT 0 0 1 0 +JabuticabeiraII JBT009_MNT 0 0 1 0 +JabuticabeiraII JBT010_MNT 0 0 2 0 +JabuticabeiraII JBT011_MNT 0 0 1 0 +JabuticabeiraII JBT012_MNT 0 0 1 0 +JabuticabeiraII JBT013_MNT 0 0 1 0 +JabuticabeiraII JBT014_MNT 0 0 2 0 +JabuticabeiraII JBT015_MNT 0 0 2 0 +JabuticabeiraII JBT018_MNT 0 0 2 0 +JabuticabeiraII JBT019_MNT 0 0 2 0 +JabuticabeiraII JBT020_MNT 0 0 1 0 +JabuticabeiraII JBT021_MNT 0 0 1 0 +JabuticabeiraII JBT022_MNT 0 0 2 0 +JabuticabeiraII JBT023_MNT 0 0 2 0 +JabuticabeiraII JBT025_MNT 0 0 1 0 +JabuticabeiraII JBT026_MNT 0 0 1 0 +LocaDoSuin PAI001_MNT 0 0 1 0 +Palmeiras_Xingu PLM001_MNT 0 0 1 0 +Kaingang SAM014_MNT 0 0 1 0 +PedraDoAlexandre_2 TDA002_MNT 0 0 1 0 +Vau_Una VSM001_MNT 0 0 1 0 diff --git a/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.janno b/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.janno new file mode 100644 index 0000000..ea8f7b9 --- /dev/null +++ b/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.janno @@ -0,0 +1,35 @@ +Poseidon_ID Genetic_Sex Group_Name Alternative_IDs Relation_To Relation_Degree Relation_Type Relation_Note Collection_ID Country Country_ISO Location Site Latitude Longitude Date_Type Date_C14_Labnr Date_C14_Uncal_BP Date_C14_Uncal_BP_Err Date_BC_AD_Start Date_BC_AD_Median Date_BC_AD_Stop Date_Note MT_Haplogroup Y_Haplogroup Source_Tissue Nr_Libraries Library_Names Capture_Type UDG Library_Built Genotype_Ploidy Data_Preparation_Pipeline_URL Endogenous Nr_SNPs Coverage_on_Target_SNPs Damage Contamination Contamination_Err Contamination_Meas Contamination_Note Genetic_Source_Accession_IDs Primary_Contact Publication Note Keywords Eager_ID Main_ID RateErrX RateErrY RateX RateY +CAP007_MNT M Capelinha n/a n/a n/a n/a n/a n/a Brazil BR Brazil_Southeast_Coast Capelinha -17.690833 -42.515833 C14 MAMS-17754 9253 25 n/a n/a n/a n/a C1d1 Q1b1a1a bone_pars_petrosa 2 CAP007.A0101.TF1.1_2;CAP007.A0101.MT1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 353698 n/a 0.24629815144952558 0.008047 8.649106e-16 ANGSD[v0.935] Nr Snps (per library): 342;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192114;ERR11769643;ERR11770482 n/a 2023FerrazNatureEcologyEvolution n/a n/a CAP007 CAP007 0.004361396840448 0.005843654916514 0.384518228020361 0.455373590595517 +CBE003_MNT M Cabeçuda n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Cabeçuda -28.5067 -48.86877 C14 MAMS-43997 3352 27 n/a n/a n/a n/a D1 Q1b1a1a bone_pars_petrosa 2 CBE003.A0101.TF1.1;CBE003.A0101.MT1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 498435 n/a 0.18679139680796508 0.002467 3.657192e-16 ANGSD[v0.935] Nr Snps (per library): 741;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192115;ERR11769644;ERR11770483 n/a 2023FerrazNatureEcologyEvolution n/a n/a CBE003 CBE003 0.003568855922404 0.004935407877306001 0.397553587388143 0.501187083633043 +CBE004_MNT M Cabeçuda n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Cabeçuda -28.5067 -48.86877 C14 Beta-383566 3030 30 n/a n/a n/a n/a D4 Q1b1a1a bone_pars_petrosa 2 CBE004.A0101.MT1.1;CBE004.A0101.TF1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 400728 n/a 0.23634218442402832 0.045094 2.91838e-15 ANGSD[v0.935] Nr Snps (per library): 0;491. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192116;ERR11770484;ERR11769645 n/a 2023FerrazNatureEcologyEvolution n/a n/a CBE004 CBE004 0.0040737229896950005 0.00554803799334 0.398096273632213 0.48694874768815805 +CUB002_MNT F CubatãoI n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Cubatão I -26.2233 -48.783 C14 MAMS-45781 2492 22 n/a n/a n/a n/a D1 n/a Tooth 2 CUB002.A0101.TF1.1;CUB002.A0101.MT1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 185063 n/a 0.23027033570230307 0.12323 8.118802e-15 ANGSD[v0.935] Nr Snps (per library): 251;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192117;ERR11769646;ERR11770485 n/a 2023FerrazNatureEcologyEvolution n/a n/a CUB002 CUB002 0.009132297852653001 0.001079543928483 0.729658009376508 0.006911775724712001 +CUB008_MNT F CubatãoI n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Cubatão I -26.2233 -48.783 C14 MAMS-38996 2602 21 n/a n/a n/a n/a A2 n/a Tooth 2 CUB008.A0101.MT1.1;CUB008.A0101.TF1.1_2 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 54424 n/a 0.17126883597545403 n/a n/a n/a Nr Snps (per library): 0;15. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192118;ERR11770486;ERR11769647 n/a 2023FerrazNatureEcologyEvolution n/a n/a CUB008 CUB008 0.018610867181960002 0.0025949087567310003 0.785744325240021 0.010378106108648 +EPS001_MNT F Limão n/a n/a n/a n/a n/a n/a Brazil BR Brazil_Southeast_Coast Sambaqui Limão -7.781 -35.503 C14 MAMS-34571 448 25 n/a n/a n/a n/a B2 n/a bone_left_temporal;bone_pars_petrosa 2 EPS001.A0102.TF1.1;EPS001.A0101.MT1.1 1240K mixed ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 714574 n/a 0.13174890573318682 0.220429 8.347272e-13 ANGSD[v0.935] Nr Snps (per library): 4202;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192119;ERR11769648;ERR11770487 n/a 2023FerrazNatureEcologyEvolution n/a n/a EPS001 EPS001 0.003063961266738 0.00037053458515500003 0.6158724108015461 0.00607669485221 +EPS002_MNT M Limão n/a n/a n/a n/a n/a n/a Brazil BR Brazil_Southeast_Coast Sambaqui Limão -7.781 -35.503 C14 MAMS-40647 2617 19 n/a n/a n/a n/a D1-D1d1 Q1b1a2 bone_left_temporal;bone_pars_petrosa 2 EPS002.A0101.MT1.1_2;EPS002.A0101.TF1.1_2 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 359967 n/a 0.15640400906278362 0.007909 1.478751e-15 ANGSD[v0.935] Nr Snps (per library): 0;394. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192120;ERR11770488;ERR11769649 n/a 2023FerrazNatureEcologyEvolution n/a n/a EPS002 EPS002 0.004158112723107 0.005882301617142 0.36783800447859405 0.48486944136494603 +EPS003_MNT F Limão n/a n/a n/a n/a n/a n/a Brazil BR Brazil_Southeast_Coast Sambaqui Limão -7.781 -35.503 C14 MAMS-40648 1976 18 n/a n/a n/a n/a A2-A2m n/a bone_right_temporal;bone_pars_petrosa 2 EPS003.A0101.TF1.1;EPS003.A0101.MT1.1_2 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 444559 n/a 0.118675062929029 0.165012 2.269312e-13 ANGSD[v0.935] Nr Snps (per library): 1759;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192121;ERR11769650;ERR11770489 n/a 2023FerrazNatureEcologyEvolution n/a n/a EPS003 EPS003 0.005360478203795 0.000605315032718 0.7658853150181041 0.006630269902549 +EPS004_MNT M Limão n/a n/a n/a n/a n/a n/a Brazil BR Brazil_Southeast_Coast Sambaqui Limão -7.781 -35.503 C14 MAMS-40649 1914 19 n/a n/a n/a n/a D1-D1d2 Q1b1a2 bone_left_temporal;bone_pars_petrosa 2 EPS004.A0101.MT1.1_2;EPS004.A0101.TF1.1_2 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 374630 n/a 0.16996314162518095 0.019811 3.238567e-15 ANGSD[v0.935] Nr Snps (per library): 0;336. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192122;ERR11770490;ERR11769651 n/a 2023FerrazNatureEcologyEvolution n/a n/a EPS004 EPS004 0.004284280800197 0.005820709565113 0.383794959452866 0.46716616875681305 +EPS005_MNT F Limão n/a n/a n/a n/a n/a n/a Brazil BR Brazil_Southeast_Coast Sambaqui Limão -7.781 -35.503 C14 MAMS-40650 2025 18 n/a n/a n/a n/a C1b n/a bone_left_temporal;bone_occipital;bone_pars_petrosa 2 EPS005.A0101.MT1.1_2;EPS005.A0101.TF1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 308482 n/a 0.16418307677512736 0.187108 6.799889e-15 ANGSD[v0.935] Nr Snps (per library): 0;742. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192123;ERR11770491;ERR11769652 n/a 2023FerrazNatureEcologyEvolution n/a n/a EPS005 EPS005 0.006554258361639 0.00078366991351 0.7145677900372941 0.0069205053910170004 +EPS011_MNT F Limão n/a n/a n/a n/a n/a n/a Brazil BR Brazil_Southeast_Coast Sambaqui Limão -7.781 -35.503 n/a n/a n/a n/a n/a n/a n/a n/a A2-A2m n/a bone_maxilla;Tooth 2 EPS011.A0101.TF1.1_2;EPS011.A0101.MT1.1_2 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 292739 n/a 0.17794346524904608 0.161331 3.593999e-14 ANGSD[v0.935] Nr Snps (per library): 576;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192124;ERR11769653;ERR11770492 n/a 2023FerrazNatureEcologyEvolution n/a n/a EPS011 EPS011 0.0068985725256760005 0.0007835078402140001 0.7171280157049721 0.006267505086596001 +GA4002_MNT F GalhetaIV n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Galheta IV -28.551 -48.785 C14 Beta-280010 1360 40 n/a n/a n/a n/a C1c n/a bone_pars_petrosa 2 GA4002.A0101.TF1.1_2;GA4002.A0101.MT1.1_2 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 221615 n/a 0.2726949380104351 0.160627 1.451805e-14 ANGSD[v0.935] Nr Snps (per library): 476;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192125;ERR11769654;ERR11770493 n/a 2023FerrazNatureEcologyEvolution n/a n/a GA4002 GA4002 0.008131563247626001 0.0008612085226450001 0.7422411385895 0.005646869277606 +JBT001_MNT F JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 C14 MAMS-38997 2401 21 n/a n/a n/a n/a C1c n/a bone_pars_petrosa 2 JBT001.A0101.MT1.1;JBT001.A0101.TF1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 319633 n/a 0.19088922329662625 0.018344 3.778035e-16 ANGSD[v0.935] Nr Snps (per library): 0;243. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192126;ERR11770494;ERR11769655 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT001 JBT001 0.004658557859490001 0.0063105716156090005 0.37424398959383703 0.45285921642028204 +JBT002_MNT M JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 C14 MAMS-38998 2411 20 n/a n/a n/a n/a C1c Q1b1a bone_pars_petrosa 2 JBT002.A0101.TF1.1;JBT002.A0101.MT1.1_2 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 319632 n/a 0.19137316838981014 0.018344 3.778035e-16 ANGSD[v0.935] Nr Snps (per library): 243;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192127;ERR11769656;ERR11770495 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT002 JBT002 0.004658569434707 0.006310587270619001 0.37424491214737204 0.452860332769195 +JBT009_MNT M JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 C14 Beta-188382 2320 50 n/a n/a n/a n/a C1c Q1b1a1a1 bone_pars_petrosa 2 JBT009.A0101.TF1.1;JBT009.A0101.MT1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 934953 n/a 0.14997416805174654 0.006165 8.386503e-14 ANGSD[v0.935] Nr Snps (per library): 6761;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192128;ERR11769657;ERR11770496 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT009 JBT009 0.0014354990614200002 0.0021384086136900004 0.38795662575948403 0.5662491050823331 +JBT010_MNT F JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 C14 MAMS-40639 2440 20 n/a n/a n/a n/a C1c n/a bone_pars_petrosa 2 JBT010.A0101.MT1.1;JBT010.A0101.TF1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 543628 n/a 0.18857483896487545 0.172828 4.125757e-13 ANGSD[v0.935] Nr Snps (per library): 0;2540. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192129;ERR11770497;ERR11769658 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT010 JBT010 0.004618633399365001 0.00048386846292800006 0.7628446504059461 0.005683708817847 +JBT011_MNT M JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 n/a n/a n/a n/a n/a n/a n/a n/a C1c Q1b1a1a1 bone_pars_petrosa 2 JBT011.A0101.TF1.1_2;JBT011.A0101.MT1.1_2 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 287337 n/a 0.25159971696805794 -0.000586 2.345488e-17 ANGSD[v0.935] Nr Snps (per library): 209;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192130;ERR11769659;ERR11770498 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT011 JBT011 0.005060827814515 0.0069669299949040005 0.38660043585545906 0.48298926341926 +JBT012_MNT M JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 C14 MAMS-28362 2348 23 n/a n/a n/a n/a C1c Q1b1a1a1 bone_pars_petrosa 2 JBT012.A0101.MT1.1;JBT012.A0101.TF1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 640876 n/a 0.1752841793491135 0.0119 2.324954e-15 ANGSD[v0.935] Nr Snps (per library): 0;1387. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192131;ERR11770499;ERR11769660 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT012 JBT012 0.002799626008518 0.003871645919268 0.38042548079411703 0.479539297679883 +JBT013_MNT M JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 C14 MAMS-40641 2420 19 n/a n/a n/a n/a C1c Q1b1a1a bone_pars_petrosa 2 JBT013.A0101.TF1.1;JBT013.A0101.MT1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 606804 n/a 0.15696812618348494 0.007429 2.94944e-15 ANGSD[v0.935] Nr Snps (per library): 1205;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192132;ERR11769661;ERR11770500 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT013 JBT013 0.003016234693591 0.00417458049584 0.38990650849276504 0.492310276965264 +JBT014_MNT F JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 C14 MAMS-28363 2145 23 n/a n/a n/a n/a C1c n/a bone_pars_petrosa 2 JBT014.A0101.TF1.1;JBT014.A0101.MT1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 326332 n/a 0.16329664865302265 0.179063 2.976402e-14 ANGSD[v0.935] Nr Snps (per library): 841;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192133;ERR11769662;ERR11770501 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT014 JBT014 0.006652554435751 0.000659734324704 0.7590930830677871 0.005067151007466001 +JBT015_MNT F JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 C14 MAMS-28365 2203 24 n/a n/a n/a n/a C1c n/a bone_pars_petrosa 2 JBT015.A0101.TF1.1;JBT015.A0101.MT1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 722045 n/a 0.1390528811685416 0.216277 1.958856e-12 ANGSD[v0.935] Nr Snps (per library): 4962;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192134;ERR11769663;ERR11770502 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT015 JBT015 0.0034974473312310004 0.00036139161042400005 0.7450661994272101 0.005396314215548001 +JBT018_MNT F JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 C14 MAMS-28360 2386 23 n/a n/a n/a n/a C1c n/a bone_pars_petrosa 2 JBT018.A0101.MT1.1;JBT018.A0101.TF1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 774013 n/a 0.14106681201308993 0.159702 7.734632e-13 ANGSD[v0.935] Nr Snps (per library): 0;5927. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192135;ERR11770503;ERR11769664 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT018 JBT018 0.003274710098827 0.00036522248489200004 0.754362665960928 0.006367296080852 +JBT019_MNT F JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 C14 MAMS-28359 1498 23 n/a n/a n/a n/a B2 n/a bone_pars_petrosa 2 JBT019.A0101.TF1.1;JBT019.A0101.MT1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 454356 n/a 0.14724810700284457 0.165314 2.696814e-14 ANGSD[v0.935] Nr Snps (per library): 1640;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192136;ERR11769665;ERR11770504 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT019 JBT019 0.005300516898618 0.000596643379214 0.7629817133524851 0.006562465815708 +JBT020_MNT M JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 C14 MAMS-40644 2331 19 n/a n/a n/a n/a C1c Q1b1a1a1 bone_pars_petrosa 2 JBT020.A0101.MT1.1_2;JBT020.A0101.TF1.1_2 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 244203 n/a 0.19730429754719253 0.008544 3.894445e-17 ANGSD[v0.935] Nr Snps (per library): 0;127. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192137;ERR11770505;ERR11769666 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT020 JBT020 0.0057612987079510005 0.007990744797436 0.39762092915927205 0.5041780975588921 +JBT021_MNT M JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 C14 MAMS-40640 2323 19 n/a n/a n/a n/a C1c Q1b1a1a bone_pars_petrosa 2 JBT021.A0101.TF1.1;JBT021.A0101.MT1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 592078 n/a 0.18644046706952794 0.003103 2.869869e-15 ANGSD[v0.935] Nr Snps (per library): 1118;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192138;ERR11769667;ERR11770506 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT021 JBT021 0.002972736979892 0.004203248740903 0.379474184449658 0.499734870170468 +JBT022_MNT F JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 n/a n/a n/a n/a n/a n/a n/a n/a C1c bone_pars_petrosa 2 JBT022.A0101.MT1.1;JBT022.A0101.TF1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 719388 n/a 0.1846180083872476 0.187627 1.605989e-12 ANGSD[v0.935] Nr Snps (per library): 0;4920. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192139;ERR11770507;ERR11769668 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT022 JBT022 0.003585565163442 0.00036445135948400003 0.7670481087331721 0.0053806488454200005 +JBT023_MNT F JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 C14 MAMS-40641 2420 19 n/a n/a n/a n/a C1c n/a bone_pars_petrosa 2 JBT023.A0101.MT1.1;JBT023.A0101.TF1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 687214 n/a 0.15143701102989887 0.203752 1.707349e-13 ANGSD[v0.935] Nr Snps (per library): 0;4376. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192140;ERR11770508;ERR11769669 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT023 JBT023 0.0037461627443540002 0.00041052750082300004 0.7587831998434441 0.0061846774682450005 +JBT025_MNT M JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 C14 MAMS-40642 2407 19 n/a n/a n/a n/a C1c Q1b1a1a1 bone_pars_petrosa 2 JBT025.A0101.TF1.1;JBT025.A0101.MT1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 668298 n/a 0.18115007680676287 0.00348 2.698886e-15 ANGSD[v0.935] Nr Snps (per library): 1613;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192141;ERR11769670;ERR11770509 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT025 JBT025 0.0026590872143860004 0.0036943120929940005 0.37721649128699103 0.47983641489613504 +JBT026_MNT M JabuticabeiraII n/a n/a n/a n/a n/a n/a Brazil BR Brazil_South_Coast Jabuticabeira II -28.563 -48.977 C14 MAMS-40643 2310 19 n/a n/a n/a n/a C1c Q1b1a1a bone_pars_petrosa 2 JBT026.A0101.TF1.1;JBT026.A0101.MT1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 678913 n/a 0.21276447883640845 0.007587 9.52914e-15 ANGSD[v0.935] Nr Snps (per library): 1746;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192142;ERR11769671;ERR11770510 n/a 2023FerrazNatureEcologyEvolution n/a n/a JBT026 JBT026 0.002637318774531 0.0035933681452420003 0.38526396328800305 0.47161289683949403 +PAI001_MNT M LocaDoSuin n/a n/a n/a n/a n/a n/a Brazil BR Central_Brazil Loca do Suin n/a n/a C14 MAMS-28708 8172 32 n/a n/a n/a n/a C4c Q1b1 bone_pars_petrosa 2 PAI001.A0101.TF1.1_2;PAI001.A0101.MT1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 360955 n/a 0.12335306361763453 0.000935 2.637799e-17 ANGSD[v0.935] Nr Snps (per library): 303;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192143;ERR11769672;ERR11770511 n/a 2023FerrazNatureEcologyEvolution n/a n/a PAI001 PAI001 0.003979665076958 0.005577495126260001 0.32945916896946004 0.42624321176206403 +PLM001_MNT M Palmeiras_Xingu n/a n/a n/a n/a n/a n/a Brazil BR Southeast_Amazonia Palmeiras-Xingu n/a n/a C14 MAMS-43998 477 21 n/a n/a n/a n/a B2b-n Q1b1a Tooth 2 PLM001.A0101.TF1.1;PLM001.A0101.MT1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 376153 n/a 0.28188207954607936 0.012267 9.525132999999998e-16 ANGSD[v0.935] Nr Snps (per library): 447;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192144;ERR11769673;ERR11770512 n/a 2023FerrazNatureEcologyEvolution n/a n/a PLM001 PLM001 0.004320862738142001 0.005732626009561001 0.40524128054107605 0.470768964618814 +SAM014_MNT M Kaingang n/a n/a n/a n/a n/a n/a Brazil BR Brazil_Southeast_Coast Kaingang n/a n/a C14 MAMS-28711 100 22 n/a n/a n/a n/a B2 Q1b1a1a1p Tooth 2 SAM014.A0101.MT1.1;SAM014.A0101.TF1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 233741 n/a 4.7823878232706424e-2 0.035803 0.0 ANGSD[v0.935] Nr Snps (per library): 0;100. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192145;ERR11770513;ERR11769674 n/a 2023FerrazNatureEcologyEvolution n/a n/a SAM014 SAM014 0.005839081840748 0.00789321030433 0.38862317534433805 0.468378947071364 +TDA002_MNT M PedraDoAlexandre_2 n/a n/a n/a n/a n/a n/a Brazil BR Northeast_of_Brazil Pedra do Alexandre -6.47358 -36.52447 n/a n/a n/a n/a n/a n/a n/a n/a C1b Q1b1a1a1p bone_pars_petrosa 2 TDA002.A0101.MT1.1;TDA002.A0102.TF1.1_2_3 1240K minus ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 211981 n/a 0.14411746669912717 0.008917 4.615799e-16 ANGSD[v0.935] Nr Snps (per library): 0;178. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192146;ERR11770514;ERR11769675 n/a 2023FerrazNatureEcologyEvolution n/a n/a TDA002 TDA002 0.006333950855652 0.008468990019491 0.41027393658989203 0.48400231661056103 +VSM001_MNT M Vau_Una n/a n/a n/a n/a n/a n/a Brazil BR Northeast_of_Brazil Vau - Sta.M.Vitória -13.3098 -45.093 C14 MAMS-45782 629 21 n/a n/a n/a n/a B2b3a Q1b1a1a1 n/a 2 VSM001.A0101.TF1.1_2;VSM001.A0101.MT1.1 1240K half ds haploid https://github.com/nf-core/eager/releases/tag/2.5.1 n/a 751315 n/a 7.768095862819695e-2 0.003718 6.856717e-15 ANGSD[v0.935] Nr Snps (per library): 2397;0. Estimate and error are weighted means of values per library. Libraries with fewer than 100 SNPs used in contamination estimation were excluded. PRJEB51863;ERS16192147;ERR11769676;ERR11770515 n/a 2023FerrazNatureEcologyEvolution n/a n/a VSM001 VSM001 0.00228302355636 0.003307009151786 0.36765980854712005 0.5077855977511251 diff --git a/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.ssf b/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.ssf new file mode 100644 index 0000000..22f5a9a --- /dev/null +++ b/2023_Ferraz_NatureEcologyEvolution/2023_Ferraz_NatureEcologyEvolution.ssf @@ -0,0 +1,69 @@ +poseidon_IDs udg library_built sample_accession study_accession run_accession sample_alias secondary_sample_accession first_public last_updated instrument_model library_layout library_source instrument_platform library_name library_strategy fastq_ftp fastq_aspera fastq_bytes fastq_md5 read_count submitted_ftp notes +CBE003_MNT half ds SAMEA114211430 PRJEB51863 ERR11769644 CBE003.A ERS16192115 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA CBE003.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/044/ERR11769644/ERR11769644.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/044/ERR11769644/ERR11769644.fastq.gz 90523690 d0bed2a85048d63848fa5e156ab2b530 2474595 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769644/CBE003.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769644/CBE003.A0101.TF1.1.bam.bai n/a +CUB002_MNT half ds SAMEA114211432 PRJEB51863 ERR11769646 CUB002.A ERS16192117 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA CUB002.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/046/ERR11769646/ERR11769646.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/046/ERR11769646/ERR11769646.fastq.gz 30019484 204426585b0b845a282b26c808b35288 916802 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769646/CUB002.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769646/CUB002.A0101.TF1.1.bam.bai n/a +GA4002_MNT half ds SAMEA114211440 PRJEB51863 ERR11769654 GA4002.A ERS16192125 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA GA4002.A0101.TF1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/054/ERR11769654/ERR11769654.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/054/ERR11769654/ERR11769654.fastq.gz 25606139 d2cfe69d16447b8df869b3ddbb7e29ce 779052 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769654/GA4002.A1.A2.TF.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769654/GA4002.A1.A2.TF.bam.bai n/a +JBT009_MNT half ds SAMEA114211443 PRJEB51863 ERR11769657 JBT009.A ERS16192128 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT009.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/057/ERR11769657/ERR11769657.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/057/ERR11769657/ERR11769657.fastq.gz 343320619 43f8abc2d1eaca40a39660beeba8d939 10358242 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769657/JBT009.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769657/JBT009.A0101.TF1.1.bam.bai n/a +JBT011_MNT half ds SAMEA114211445 PRJEB51863 ERR11769659 JBT011.A ERS16192130 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT011.A0101.TF1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/059/ERR11769659/ERR11769659.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/059/ERR11769659/ERR11769659.fastq.gz 42294357 dcb49f646260a44b0a8cdb932e351f85 1265264 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769659/JBT011.A1.A2.TF.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769659/JBT011.A1.A2.TF.bam.bai n/a +JBT015_MNT half ds SAMEA114211449 PRJEB51863 ERR11769663 JBT015.A ERS16192134 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT015.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/063/ERR11769663/ERR11769663.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/063/ERR11769663/ERR11769663.fastq.gz 294663639 3598053a1c076ffce2bec68dc8a52533 8139902 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769663/JBT015.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769663/JBT015.A0101.TF1.1.bam.bai n/a +JBT025_MNT half ds SAMEA114211456 PRJEB51863 ERR11769670 JBT025.A ERS16192141 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT025.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/070/ERR11769670/ERR11769670.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/070/ERR11769670/ERR11769670.fastq.gz 169217546 501a74c502f0bec902bf60f02f7f1f8e 4821885 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769670/JBT025.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769670/JBT025.A0101.TF1.1.bam.bai n/a +JBT026_MNT half ds SAMEA114211457 PRJEB51863 ERR11769671 JBT026.A ERS16192142 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT026.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/071/ERR11769671/ERR11769671.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/071/ERR11769671/ERR11769671.fastq.gz 166247854 826d223c1c22332ae92cc0187955297d 4956814 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769671/JBT026.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769671/JBT026.A0101.TF1.1.bam.bai n/a +CBE004_MNT half ds SAMEA114211431 PRJEB51863 ERR11770484 CBE004.A ERS16192116 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA CBE004.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/084/ERR11770484/ERR11770484.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/084/ERR11770484/ERR11770484.fastq.gz 68859 99ad3db32a518df8a560de11e0c363e1 2855 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770484/CBE004.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770484/CBE004.A0101.MT1.1.bam.bai n/a +CUB002_MNT half ds SAMEA114211432 PRJEB51863 ERR11770485 CUB002.A ERS16192117 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA CUB002.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/085/ERR11770485/ERR11770485.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/085/ERR11770485/ERR11770485.fastq.gz 154383 b2ecc6ca7c7a0d6b69f52d43799a68f4 6855 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770485/CUB002.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770485/CUB002.A0101.MT1.1.bam.bai n/a +CUB008_MNT half ds SAMEA114211433 PRJEB51863 ERR11770486 CUB008.A ERS16192118 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA CUB008.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/086/ERR11770486/ERR11770486.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/086/ERR11770486/ERR11770486.fastq.gz 399879 71d3b75c77b0b39fc34bfb9eb3bb4817 18578 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770486/CUB008.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770486/CUB008.A0101.MT1.1.bam.bai n/a +EPS002_MNT half ds SAMEA114211435 PRJEB51863 ERR11770488 EPS002.A ERS16192120 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA EPS002.A0101.MT1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/088/ERR11770488/ERR11770488.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/088/ERR11770488/ERR11770488.fastq.gz 38880 8ae4ecee387163e8b75e52241104c8db 1322 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770488/EPS002.A0101.MT1.1_2.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770488/EPS002.A0101.MT1.1_2.bam.bai n/a +EPS004_MNT half ds SAMEA114211437 PRJEB51863 ERR11770490 EPS004.A ERS16192122 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA EPS004.A0101.MT1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/090/ERR11770490/ERR11770490.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/090/ERR11770490/ERR11770490.fastq.gz 123895 05f9be903452f1675b58345880f5c944 5074 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770490/EPS004.A0101.MT1.1_2.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770490/EPS004.A0101.MT1.1_2.bam.bai n/a +EPS005_MNT half ds SAMEA114211438 PRJEB51863 ERR11770491 EPS005.A ERS16192123 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA EPS005.A0101.MT1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/091/ERR11770491/ERR11770491.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/091/ERR11770491/ERR11770491.fastq.gz 221462 4b742bf7f09a42e6134e64c6bc1fc5dc 9577 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770491/EPS005.A0101.MT1.1_2.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770491/EPS005.A0101.MT1.1_2.bam.bai n/a +JBT001_MNT half ds SAMEA114211441 PRJEB51863 ERR11770494 JBT001.A ERS16192126 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT001.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/094/ERR11770494/ERR11770494.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/094/ERR11770494/ERR11770494.fastq.gz 652792 cb9b8f9a2380a779f162a53b0b74e361 28919 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770494/JBT001.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770494/JBT001.A0101.MT1.1.bam.bai n/a +JBT010_MNT half ds SAMEA114211444 PRJEB51863 ERR11770497 JBT010.A ERS16192129 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT010.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/097/ERR11770497/ERR11770497.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/097/ERR11770497/ERR11770497.fastq.gz 450343 48dc6f6d51620c9ee111cf4cdefa0aa1 20689 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770497/JBT010.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770497/JBT010.A0101.MT1.1.bam.bai n/a +JBT012_MNT half ds SAMEA114211446 PRJEB51863 ERR11770499 JBT012.A ERS16192131 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT012.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/099/ERR11770499/ERR11770499.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/099/ERR11770499/ERR11770499.fastq.gz 577073 dad5d8efcd5bc94011d31b17a3aa17d5 26433 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770499/JBT012.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770499/JBT012.A0101.MT1.1.bam.bai n/a +JBT015_MNT half ds SAMEA114211449 PRJEB51863 ERR11770502 JBT015.A ERS16192134 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT015.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/002/ERR11770502/ERR11770502.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/002/ERR11770502/ERR11770502.fastq.gz 687579 03c2d47e3a365f89281c34025208f829 31391 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770502/JBT015.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770502/JBT015.A0101.MT1.1.bam.bai n/a +JBT020_MNT half ds SAMEA114211452 PRJEB51863 ERR11770505 JBT020.A ERS16192137 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT020.A0101.MT1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/005/ERR11770505/ERR11770505.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/005/ERR11770505/ERR11770505.fastq.gz 194756 ed6849ef2c3291b160d7e359ec350e5c 8775 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770505/JBT020.A0101.MT1.1_2.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770505/JBT020.A0101.MT1.1_2.bam.bai n/a +JBT023_MNT half ds SAMEA114211455 PRJEB51863 ERR11770508 JBT023.A ERS16192140 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT023.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/008/ERR11770508/ERR11770508.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/008/ERR11770508/ERR11770508.fastq.gz 531398 2286196b46daed6776ee802d4cbd6a60 23918 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770508/JBT023.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770508/JBT023.A0101.MT1.1.bam.bai n/a +JBT025_MNT half ds SAMEA114211456 PRJEB51863 ERR11770509 JBT025.A ERS16192141 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT025.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/009/ERR11770509/ERR11770509.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/009/ERR11770509/ERR11770509.fastq.gz 490795 4d71569c81d0ee41428de55dc9dab7f4 22294 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770509/JBT025.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770509/JBT025.A0101.MT1.1.bam.bai n/a +SAM014_MNT half ds SAMEA114211460 PRJEB51863 ERR11770513 SAM014.A ERS16192145 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA SAM014.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/013/ERR11770513/ERR11770513.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/013/ERR11770513/ERR11770513.fastq.gz 614175 09e49617dbb690e1610625bafbb8fc64 32138 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770513/SAM014.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770513/SAM014.A0101.MT1.1.bam.bai n/a +TDA002_MNT minus ds SAMEA114211461 PRJEB51863 ERR11770514 TDA002.A ERS16192146 2023-07-30 2023-07-30 Illumina HiSeq 4000 PAIRED METAGENOMIC ILLUMINA TDA002.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/014/ERR11770514/ERR11770514.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/014/ERR11770514/ERR11770514.fastq.gz 332042 e48bbc8d82e39312fe3a0c31b552f544 17116 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770514/TDA002.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770514/TDA002.A0101.MT1.1.bam.bai n/a +CAP007_MNT half ds SAMEA114211429 PRJEB51863 ERR11769643 CAP007.A ERS16192114 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA CAP007.A0101.TF1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/043/ERR11769643/ERR11769643.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/043/ERR11769643/ERR11769643.fastq.gz 71637838 d0f44ca444c2eb2fed8a9faa0cb5fc53 2075045 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769643/CAP007.A1.A2.TF.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769643/CAP007.A1.A2.TF.bam.bai n/a +EPS001_MNT half ds SAMEA114211434 PRJEB51863 ERR11769648 EPS001.A ERS16192119 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA EPS001.A0102.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/048/ERR11769648/ERR11769648.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/048/ERR11769648/ERR11769648.fastq.gz 244535053 c93b076395089199789f8419a679231a 6623002 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769648/EPS001.A0102.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769648/EPS001.A0102.TF1.1.bam.bai n/a +EPS005_MNT half ds SAMEA114211438 PRJEB51863 ERR11769652 EPS005.A ERS16192123 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA EPS005.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/052/ERR11769652/ERR11769652.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/052/ERR11769652/ERR11769652.fastq.gz 50771393 72e107df711bc2225dfa93ef62ab7005 1400750 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769652/EPS005.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769652/EPS005.A0101.TF1.1.bam.bai n/a +EPS011_MNT half ds SAMEA114211439 PRJEB51863 ERR11769653 EPS011.A ERS16192124 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA EPS011.A0101.TF1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/053/ERR11769653/ERR11769653.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/053/ERR11769653/ERR11769653.fastq.gz 47304747 6e1c7305b114e81acf8c2a1365e6720c 1449018 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769653/EPS011.A1.A2.TF.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769653/EPS011.A1.A2.TF.bam.bai n/a +JBT001_MNT half ds SAMEA114211441 PRJEB51863 ERR11769655 JBT001.A ERS16192126 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT001.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/055/ERR11769655/ERR11769655.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/055/ERR11769655/ERR11769655.fastq.gz 53112674 0cfcdef10de4b5992a1b68c8c66ca05e 1490340 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769655/JBT001.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769655/JBT001.A0101.TF1.1.bam.bai n/a +JBT002_MNT half ds SAMEA114211442 PRJEB51863 ERR11769656 JBT002.A ERS16192127 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT002.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/056/ERR11769656/ERR11769656.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/056/ERR11769656/ERR11769656.fastq.gz 53112733 770bcdebdc3beb268ddea74c6dfa1c42 1490340 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769656/JBT002.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769656/JBT002.A0101.TF1.1.bam.bai n/a +JBT010_MNT half ds SAMEA114211444 PRJEB51863 ERR11769658 JBT010.A ERS16192129 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT010.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/058/ERR11769658/ERR11769658.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/058/ERR11769658/ERR11769658.fastq.gz 110844075 3a6c5221f108b5d2a49d2c91813556ae 3144140 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769658/JBT010.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769658/JBT010.A0101.TF1.1.bam.bai n/a +JBT013_MNT half ds SAMEA114211447 PRJEB51863 ERR11769661 JBT013.A ERS16192132 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT013.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/061/ERR11769661/ERR11769661.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/061/ERR11769661/ERR11769661.fastq.gz 166241176 9773f62852612403d8ff1b262b66daab 4654952 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769661/JBT013.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769661/JBT013.A0101.TF1.1.bam.bai n/a +JBT014_MNT half ds SAMEA114211448 PRJEB51863 ERR11769662 JBT014.A ERS16192133 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT014.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/062/ERR11769662/ERR11769662.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/062/ERR11769662/ERR11769662.fastq.gz 52330382 239c54275f7c3dd2b05e7e87e5fc9ac6 1376360 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769662/JBT014.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769662/JBT014.A0101.TF1.1.bam.bai n/a +JBT019_MNT half ds SAMEA114211451 PRJEB51863 ERR11769665 JBT019.A ERS16192136 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT019.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/065/ERR11769665/ERR11769665.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/065/ERR11769665/ERR11769665.fastq.gz 88979498 7ca3009658c83bdc38113c486df45def 2344676 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769665/JBT019.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769665/JBT019.A0101.TF1.1.bam.bai n/a +JBT021_MNT half ds SAMEA114211453 PRJEB51863 ERR11769667 JBT021.A ERS16192138 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT021.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/067/ERR11769667/ERR11769667.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/067/ERR11769667/ERR11769667.fastq.gz 138704995 c0015a754c2ab9374fe670bf6b5e3e41 3956475 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769667/JBT021.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769667/JBT021.A0101.TF1.1.bam.bai n/a +JBT023_MNT half ds SAMEA114211455 PRJEB51863 ERR11769669 JBT023.A ERS16192140 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT023.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/069/ERR11769669/ERR11769669.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/069/ERR11769669/ERR11769669.fastq.gz 180222342 3936fdf75d5f79bb38e2acb601d90c9a 4945140 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769669/JBT023.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769669/JBT023.A0101.TF1.1.bam.bai n/a +PAI001_MNT half ds SAMEA114211458 PRJEB51863 ERR11769672 PAI001.A ERS16192143 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA PAI001.A0101.TF1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/072/ERR11769672/ERR11769672.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/072/ERR11769672/ERR11769672.fastq.gz 68276654 5b85fb245de1ceff976571085dd8cb6f 1710751 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769672/PAI001.A1.A2.TF.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769672/PAI001.A1.A2.TF.bam.bai n/a +PLM001_MNT half ds SAMEA114211459 PRJEB51863 ERR11769673 PLM001.A ERS16192144 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA PLM001.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/073/ERR11769673/ERR11769673.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/073/ERR11769673/ERR11769673.fastq.gz 41175528 dc19fe55523f1a15fa99f04357500d09 1257167 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769673/PLM001.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769673/PLM001.A0101.TF1.1.bam.bai n/a +CBE003_MNT half ds SAMEA114211430 PRJEB51863 ERR11770483 CBE003.A ERS16192115 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA CBE003.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/083/ERR11770483/ERR11770483.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/083/ERR11770483/ERR11770483.fastq.gz 129048 3da1fe7955be7318db60dec3c205708e 5442 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770483/CBE003.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770483/CBE003.A0101.MT1.1.bam.bai n/a +EPS001_MNT minus ds SAMEA114211434 PRJEB51863 ERR11770487 EPS001.A ERS16192119 2023-07-30 2023-07-30 Illumina HiSeq 4000 PAIRED METAGENOMIC ILLUMINA EPS001.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/087/ERR11770487/ERR11770487.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/087/ERR11770487/ERR11770487.fastq.gz 5128163 7a83c5cee035147420ce7e95d2f386bb 258367 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770487/EPS001.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770487/EPS001.A0101.MT1.1.bam.bai n/a +JBT009_MNT half ds SAMEA114211443 PRJEB51863 ERR11770496 JBT009.A ERS16192128 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT009.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/096/ERR11770496/ERR11770496.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/096/ERR11770496/ERR11770496.fastq.gz 640323 07666246d604962744e4315fdfeabbde 29826 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770496/JBT009.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770496/JBT009.A0101.MT1.1.bam.bai n/a +JBT018_MNT half ds SAMEA114211450 PRJEB51863 ERR11770503 JBT018.A ERS16192135 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT018.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/003/ERR11770503/ERR11770503.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/003/ERR11770503/ERR11770503.fastq.gz 676131 f277957ade7247860f2234838d7aaf0b 31268 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770503/JBT018.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770503/JBT018.A0101.MT1.1.bam.bai n/a +JBT019_MNT half ds SAMEA114211451 PRJEB51863 ERR11770504 JBT019.A ERS16192136 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT019.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/004/ERR11770504/ERR11770504.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/004/ERR11770504/ERR11770504.fastq.gz 272672 28c936b6ed568281c6297db4221dc6a1 11794 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770504/JBT019.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770504/JBT019.A0101.MT1.1.bam.bai n/a +JBT022_MNT half ds SAMEA114211454 PRJEB51863 ERR11770507 JBT022.A ERS16192139 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT022.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/007/ERR11770507/ERR11770507.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/007/ERR11770507/ERR11770507.fastq.gz 518915 6da17fd7d4b040a4ed76bf15f49f544f 23707 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770507/JBT022.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770507/JBT022.A0101.MT1.1.bam.bai n/a +PAI001_MNT half ds SAMEA114211458 PRJEB51863 ERR11770511 PAI001.A ERS16192143 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA PAI001.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/011/ERR11770511/ERR11770511.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/011/ERR11770511/ERR11770511.fastq.gz 169173 217f17cd7fa8c39529013fe93ea3552b 7124 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770511/PAI001.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770511/PAI001.A0101.MT1.1.bam.bai n/a +PLM001_MNT half ds SAMEA114211459 PRJEB51863 ERR11770512 PLM001.A ERS16192144 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA PLM001.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/012/ERR11770512/ERR11770512.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/012/ERR11770512/ERR11770512.fastq.gz 81071 0554e115099a49590436f9b10d5e3a3c 3372 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770512/PLM001.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770512/PLM001.A0101.MT1.1.bam.bai n/a +CBE004_MNT half ds SAMEA114211431 PRJEB51863 ERR11769645 CBE004.A ERS16192116 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA CBE004.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/045/ERR11769645/ERR11769645.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/045/ERR11769645/ERR11769645.fastq.gz 49233097 6c9294593988e10582a1d933f8acac75 1506012 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769645/CBE004.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769645/CBE004.A0101.TF1.1.bam.bai n/a +CUB008_MNT half ds SAMEA114211433 PRJEB51863 ERR11769647 CUB008.A ERS16192118 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA CUB008.A0101.TF1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/047/ERR11769647/ERR11769647.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/047/ERR11769647/ERR11769647.fastq.gz 8800375 648f972d69fc430c4de3f5eac62ff247 258809 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769647/CUB008.A1.A2.TF.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769647/CUB008.A1.A2.TF.bam.bai n/a +EPS002_MNT half ds SAMEA114211435 PRJEB51863 ERR11769649 EPS002.A ERS16192120 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA EPS002.A0101.TF1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/049/ERR11769649/ERR11769649.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/049/ERR11769649/ERR11769649.fastq.gz 43978995 219db96e0d590facdca40d572b83a0be 1236514 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769649/EPS002.A1.A2.TF.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769649/EPS002.A1.A2.TF.bam.bai n/a +EPS003_MNT half ds SAMEA114211436 PRJEB51863 ERR11769650 EPS003.A ERS16192121 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA EPS003.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/050/ERR11769650/ERR11769650.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/050/ERR11769650/ERR11769650.fastq.gz 79777984 0377040ad01e98b113b10943b84589d7 2070340 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769650/EPS003.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769650/EPS003.A0101.TF1.1.bam.bai n/a +EPS004_MNT half ds SAMEA114211437 PRJEB51863 ERR11769651 EPS004.A ERS16192122 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA EPS004.A0101.TF1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/051/ERR11769651/ERR11769651.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/051/ERR11769651/ERR11769651.fastq.gz 58585694 219180241b3b36c5c543d792bda06b5f 1603241 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769651/EPS004.A1.A2.TF.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769651/EPS004.A1.A2.TF.bam.bai n/a +JBT012_MNT half ds SAMEA114211446 PRJEB51863 ERR11769660 JBT012.A ERS16192131 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT012.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/060/ERR11769660/ERR11769660.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/060/ERR11769660/ERR11769660.fastq.gz 147761973 7b0be3d21879e51f7565c0e8362e6a5c 4206845 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769660/JBT012.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769660/JBT012.A0101.TF1.1.bam.bai n/a +JBT018_MNT half ds SAMEA114211450 PRJEB51863 ERR11769664 JBT018.A ERS16192135 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT018.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/064/ERR11769664/ERR11769664.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/064/ERR11769664/ERR11769664.fastq.gz 297152435 c68d8c0e7655b492d73f5b0cbafd8af6 8217879 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769664/JBT018.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769664/JBT018.A0101.TF1.1.bam.bai n/a +JBT020_MNT half ds SAMEA114211452 PRJEB51863 ERR11769666 JBT020.A ERS16192137 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT020.A0101.TF1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/066/ERR11769666/ERR11769666.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/066/ERR11769666/ERR11769666.fastq.gz 36505093 49628501827a9cd8037185bd5e914271 1003891 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769666/JBT020.A1.A2.TF.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769666/JBT020.A1.A2.TF.bam.bai n/a +JBT022_MNT half ds SAMEA114211454 PRJEB51863 ERR11769668 JBT022.A ERS16192139 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT022.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/068/ERR11769668/ERR11769668.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/068/ERR11769668/ERR11769668.fastq.gz 223120392 4fee6a1eaf69310beeb031136e0b3f52 6384490 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769668/JBT022.A0101.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769668/JBT022.A0101.TF1.1.bam.bai n/a +SAM014_MNT half ds SAMEA114211460 PRJEB51863 ERR11769674 SAM014.A ERS16192145 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA SAM014.A0101.TF1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/074/ERR11769674/ERR11769674.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/074/ERR11769674/ERR11769674.fastq.gz 39812695 5ec9586095e5a01bfdff5fb8af4c5391 1015585 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769674/SAM014.A1010.TF1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769674/SAM014.A1010.TF1.1.bam.bai n/a +TDA002_MNT minus ds SAMEA114211461 PRJEB51863 ERR11769675 TDA002.A ERS16192146 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA TDA002.A0102.TF1.1_2_3 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/075/ERR11769675/ERR11769675.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/075/ERR11769675/ERR11769675.fastq.gz 31979683 a237472d8ac77356266f51a69bf79c1c 966976 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769675/TDA002.A1.A2.3.TF.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769675/TDA002.A1.A2.3.TF.bam.bai n/a +VSM001_MNT half ds SAMEA114211462 PRJEB51863 ERR11769676 VSM001.A ERS16192147 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA VSM001.A0101.TF1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/076/ERR11769676/ERR11769676.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/076/ERR11769676/ERR11769676.fastq.gz 306300826 2a6ab92720d9d9dbf58761a7a6991af9 7571739 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769676/VSM001.A1.A2.TF.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11769676/VSM001.A1.A2.TF.bam.bai n/a +CAP007_MNT half ds SAMEA114211429 PRJEB51863 ERR11770482 CAP007.A ERS16192114 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA CAP007.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/082/ERR11770482/ERR11770482.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/082/ERR11770482/ERR11770482.fastq.gz 261829 520ff4df06141963459e1db8eee5bf91 12501 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770482/CAP007.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770482/CAP007.A0101.MT1.1.bam.bai n/a +EPS003_MNT half ds SAMEA114211436 PRJEB51863 ERR11770489 EPS003.A ERS16192121 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA EPS003.A0101.MT1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/089/ERR11770489/ERR11770489.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/089/ERR11770489/ERR11770489.fastq.gz 345562 45176c22681f0fa8d1019f4fcac2b4be 14781 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770489/EPS003.A0101.MT1.1_2.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770489/EPS003.A0101.MT1.1_2.bam.bai n/a +EPS011_MNT half ds SAMEA114211439 PRJEB51863 ERR11770492 EPS011.A ERS16192124 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA EPS011.A0101.MT1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/092/ERR11770492/ERR11770492.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/092/ERR11770492/ERR11770492.fastq.gz 547737 0d3db6dae42e8feda9c7413ed5299ca9 25591 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770492/EPS011.A0101.MT1.1_2.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770492/EPS011.A0101.MT1.1_2.bam.bai n/a +GA4002_MNT half ds SAMEA114211440 PRJEB51863 ERR11770493 GA4002.A ERS16192125 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA GA4002.A0101.MT1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/093/ERR11770493/ERR11770493.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/093/ERR11770493/ERR11770493.fastq.gz 207727 8bfae95b524b84fd62fa247b96610079 9701 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770493/GA4002.A0101.MT1.1_2.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770493/GA4002.A0101.MT1.1_2.bam.bai n/a +JBT002_MNT half ds SAMEA114211442 PRJEB51863 ERR11770495 JBT002.A ERS16192127 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT002.A0101.MT1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/095/ERR11770495/ERR11770495.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/095/ERR11770495/ERR11770495.fastq.gz 651670 0e54b13b383fcdb32cb9b7a93b5ce29d 45074 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770495/JBT002.A0101.MT1.1_2.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770495/JBT002.A0101.MT1.1_2.bam.bai n/a +JBT011_MNT half ds SAMEA114211445 PRJEB51863 ERR11770498 JBT011.A ERS16192130 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT011.A0101.MT1.1_2 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/098/ERR11770498/ERR11770498.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/098/ERR11770498/ERR11770498.fastq.gz 349129 75f61fd9f00f66e44c11422deb8cb7d2 16948 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770498/JBT011.A0101.MT1.1_2.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770498/JBT011.A0101.MT1.1_2.bam.bai n/a +JBT013_MNT half ds SAMEA114211447 PRJEB51863 ERR11770500 JBT013.A ERS16192132 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT013.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/000/ERR11770500/ERR11770500.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/000/ERR11770500/ERR11770500.fastq.gz 580413 927bd69df049f54b9e65dd2f25f78149 26455 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770500/JBT013.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770500/JBT013.A0101.MT1.1.bam.bai n/a +JBT014_MNT half ds SAMEA114211448 PRJEB51863 ERR11770501 JBT014.A ERS16192133 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT014.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/001/ERR11770501/ERR11770501.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/001/ERR11770501/ERR11770501.fastq.gz 170581 f466138c591ecfcf979818a192636d28 7203 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770501/JBT014.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770501/JBT014.A0101.MT1.1.bam.bai n/a +JBT021_MNT half ds SAMEA114211453 PRJEB51863 ERR11770506 JBT021.A ERS16192138 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT021.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/006/ERR11770506/ERR11770506.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/006/ERR11770506/ERR11770506.fastq.gz 556721 8e732ab850ae0c08372e1cded04ed4f8 25457 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770506/JBT021.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770506/JBT021.A0101.MT1.1.bam.bai n/a +JBT026_MNT half ds SAMEA114211457 PRJEB51863 ERR11770510 JBT026.A ERS16192142 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA JBT026.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/010/ERR11770510/ERR11770510.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/010/ERR11770510/ERR11770510.fastq.gz 495645 51d20a7dad7e8ca0bc49ce6df211e84b 22734 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770510/JBT026.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770510/JBT026.A0101.MT1.1.bam.bai n/a +VSM001_MNT half ds SAMEA114211462 PRJEB51863 ERR11770515 VSM001.A ERS16192147 2023-07-30 2023-07-30 Illumina HiSeq 4000 SINGLE METAGENOMIC ILLUMINA VSM001.A0101.MT1.1 Targeted-Capture ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/015/ERR11770515/ERR11770515.fastq.gz fasp.sra.ebi.ac.uk:/vol1/fastq/ERR117/015/ERR11770515/ERR11770515.fastq.gz 604317 055cb5e6c631c4bdcbebf0159f42f9a3 31047 ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770515/VSM001.A0101.MT1.1.bam;ftp.sra.ebi.ac.uk/vol1/run/ERR117/ERR11770515/VSM001.A0101.MT1.1.bam.bai n/a diff --git a/2023_Ferraz_NatureEcologyEvolution/CHANGELOG.md b/2023_Ferraz_NatureEcologyEvolution/CHANGELOG.md new file mode 100644 index 0000000..5cc8a64 --- /dev/null +++ b/2023_Ferraz_NatureEcologyEvolution/CHANGELOG.md @@ -0,0 +1,5 @@ +- V 0.3.1: Add bibFile and Publication info. +- V 0.3.0: Add janno info collected by @Kavlahkaff. Mirror info to fam file.Add @Kavlahkaff as Contributor. Update checksums. +- V 0.2.0: Rearrange Poseidon_IDs alphabetically. +- V 0.1.2: Automatic update of janno file from Minotaur processing. +- V 0.1.1: Added self as contributor to package. diff --git a/2023_Ferraz_NatureEcologyEvolution/POSEIDON.yml b/2023_Ferraz_NatureEcologyEvolution/POSEIDON.yml new file mode 100644 index 0000000..6665815 --- /dev/null +++ b/2023_Ferraz_NatureEcologyEvolution/POSEIDON.yml @@ -0,0 +1,27 @@ +poseidonVersion: 2.7.1 +title: 2023_Ferraz_NatureEcologyEvolution +description: Empty package template. Please add a description +contributor: +- name: Thiseas C. Lamnidis + email: thiseas_christos_lamnidis@eva.mpg.de +- name: Luca Thale-Bombien + email: luca_thale_bombien@eva.mpg.de +packageVersion: 0.3.1 +lastModified: 2024-12-13 +genotypeData: + format: PLINK + genoFile: 2023_Ferraz_NatureEcologyEvolution.bed + genoFileChkSum: 41f64d7dca8f3dbcbccaf99b2d456aa2 + snpFile: 2023_Ferraz_NatureEcologyEvolution.bim + snpFileChkSum: 433fa85a23f3123bade02348e4628b75 + indFile: 2023_Ferraz_NatureEcologyEvolution.fam + indFileChkSum: b59de35142b2831413188ed8f22f1d4a + snpSet: 1240K +jannoFile: 2023_Ferraz_NatureEcologyEvolution.janno +jannoFileChkSum: 792f8711600cc551a2696492a01207a8 +sequencingSourceFile: 2023_Ferraz_NatureEcologyEvolution.ssf +sequencingSourceFileChkSum: a00efeb96763bbfa1356954c00ba3174 +bibFile: 2023_Ferraz_NatureEcologyEvolution.bib +bibFileChkSum: 5f1d10005b0df45de56ea0750264cd34 +readmeFile: README.md +changelogFile: CHANGELOG.md diff --git a/2023_Ferraz_NatureEcologyEvolution/README.md b/2023_Ferraz_NatureEcologyEvolution/README.md new file mode 100644 index 0000000..47c95cf --- /dev/null +++ b/2023_Ferraz_NatureEcologyEvolution/README.md @@ -0,0 +1,35 @@ +# 2023_Ferraz_NatureEcologyEvolution +This package was created on 2024-12-13 and was processed using the following versions: + - nf-core/eager version: 2.5.1 + - Minotaur config version: 0.4.0dev + - CaptureType profile: 1240K + - CaptureType config version: 0.2.2dev + - Config template version: 0.3.0dev + - Package config version: 0.3.0dev + - Minotaur-packager version: 0.4.3dev + - populate_janno.py version: 0.5.0dev + +## Mirror Group_Name and Genetic_Sex from janno to fam +```bash +package_name="2023_Ferraz_NatureEcologyEvolution" +paste -d "\t" ${package_name}/${package_name}.fam <(cut -f 1-3 ${package_name}/${package_name}.janno |tail -n +2) | \ + awk ' + BEGIN{ + OFS=IFS="\t" + } + { + $1=$9 + if ($8 == "M") { + $5=1 + } else if ($8 == "F") { + $5=2 + } + print $1,$2,$3,$4,$5,$6 + } + ' > tmp.fam +## Cannot overwrite in the same command that reads in the file, so an extra mv is needed. +mv tmp.fam ${package_name}/${package_name}.fam + +## trident version: 1.5.4.0 +trident rectify --packageVersion Patch --logText "Add janno info collected by @Kavlahkaff. Mirror info to fam file.Add @Kavlahkaff as Contributor." --checksumAll -d ${package_name} +```