added pacbio longread file #1342
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added 2 commits
October 8, 2024 21:37
jfy133
reviewed
Oct 9, 2024
| @@ -507,6 +507,8 @@ The folder is structured in the following way: Any nonspecific-pangenome file is | |||
| - mini.5p--3p.bam: subsample of hifi reads from the public pacbio dataset [pbmc singlecell mini](https://downloads.pacbcloud.com/public/dataset/IsoSeq_sandbox/2022_pbmc_singlecell_mini/ccs.bam) where the primers where removed with LIMA. | |||
| - test.sorted.bam: 35 reads from a [public PacBio Revio dataset of HG002](https://downloads.pacbcloud.com/public/revio/2022Q4/HG002-rep1/analysis/HG002.m84011_220902_175841_s1.GRCh38.bam) aligned to GRCh38. | |||
| - test.sorted.bam.bai: BAM index for 'test.sorted.bam' | |||
| - sample_pacbio_longread_dna.aligned.bam: WGS aligned reads generated by pbmm2, containing RG information | |||
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Whas is the source of the reads used to align, and what is the reference genome - is it the genome.fasta here: https://github.com/nf-core/test-datasets/tree/1991fd4939c86871d116eb74276b2f00b5388d65/data/genomics/homo_sapiens/genome
For example?
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want to add pacbio longread dna (with RG information) for testing with pbsv and other pacbio-based modules