tools_iuc.yaml.lock

install_repository_dependencies: true
install_resolver_dependencies: true
install_tool_dependencies: false
tools:
- name: bedtools
  owner: iuc
  revisions:
  - b8348686a0b9
  tool_panel_section_label: Operate on Genomic Intervals
- name: kallisto_quant
  owner: iuc
  revisions:
  - 59a4c97b85d6
  tool_panel_section_label: RNA Analysis
- name: kallisto_pseudo
  owner: iuc
  revisions:
  - 2953303df011
  - 63f76b9f4ba7
  tool_panel_section_label: RNA Analysis
- name: ggplot2_violin
  owner: iuc
  revisions:
  - a597d59df9ee
  - d85535076554
  tool_panel_section_label: Graph/Display Data
- name: ggplot2_heatmap2
  owner: iuc
  revisions:
  - 76380bf74511
  - cb04f3235a4e
  tool_panel_section_label: Graph/Display Data
- name: ggplot2_point
  owner: iuc
  revisions:
  - 1bff6682e780
  - a78aa83f6625
  tool_panel_section_label: Graph/Display Data
- name: ggplot2_histogram
  owner: iuc
  revisions:
  - 9d060114554c
  - d3d92fb20389
  tool_panel_section_label: Graph/Display Data
- name: tsne
  owner: iuc
  revisions:
  - 53cfe6f313b3
  tool_panel_section_label: Graph/Display Data
- name: idr
  owner: iuc
  revisions:
  - d3ebbf39b1c5
  tool_panel_section_label: RNA Analysis
- name: circos
  owner: iuc
  revisions:
  - ef5f8bbf7730
  tool_panel_section_label: Graph/Display Data
- name: ebi_search_rest_results
  owner: iuc
  revisions:
  - 42d5e40fcd0b
  - b6029f2c71cb
  tool_panel_section_label: Get Data
- name: ebi_metagenomics_run_downloader
  owner: iuc
  revisions:
  - e2e9fae080ad
  - a1ef6c88ee37
  tool_panel_section_label: Get Data
- name: column_maker
  owner: devteam
  revisions:
  - 626658afe4cb
  tool_panel_section_label: Text Manipulation
- name: reshape2_melt
  owner: iuc
  revisions:
  - 317ed0ee8bf2
  tool_panel_section_label: Text Manipulation
- name: reshape2_cast
  owner: iuc
  revisions:
  - d3b66a3a08ca
  tool_panel_section_label: Text Manipulation
- name: sra_tools
  owner: iuc
  revisions:
  - 26b7446bb17e
  - b723c120161a
  tool_panel_section_label: Get Data
- name: prinseq
  owner: iuc
  revisions:
  - 02befcb391f5
  - 6b865dde1baa
  tool_panel_section_label: Text Manipulation
- name: add_value
  owner: devteam
  revisions:
  - 745871c0b055
  tool_panel_section_label: Text Manipulation
- name: dwt_var_perfeature
  owner: devteam
  revisions:
  - cb1c59d69557
  tool_panel_section_label: Statistics
- name: merge_cols
  owner: devteam
  revisions:
  - f2aac0c5c60d
  tool_panel_section_label: Text Manipulation
- name: jq
  owner: iuc
  revisions:
  - 5ff75eb1a893
  tool_panel_section_label: Text Manipulation
- name: column_maker
  owner: devteam
  revisions:
  - 626658afe4cb
  tool_panel_section_label: Text Manipulation
- name: coverage
  owner: devteam
  revisions:
  - bc9c66c1e9c9
  - 1e864693a1c0
  tool_panel_section_label: Text Manipulation
- name: tables_arithmetic_operations
  owner: devteam
  revisions:
  - 82fa5062d611
  - 2e9f3b6ebfbc
  tool_panel_section_label: Text Manipulation
- name: merge
  owner: devteam
  revisions:
  - 0926c81f382c
  tool_panel_section_label: Text Manipulation
- name: intersect
  owner: devteam
  revisions:
  - 8ddabc73af92
  - 5b3c6135a982
  tool_panel_section_label: Text Manipulation
- name: flanking_features
  owner: devteam
  revisions:
  - 8307665c4b6c
  tool_panel_section_label: Text Manipulation
- name: join
  owner: devteam
  revisions:
  - ffbd1de29c28
  - e56b47dce68a
  tool_panel_section_label: Text Manipulation
- name: cluster
  owner: devteam
  revisions:
  - 765ceb06c3e2
  - d5677eecbad4
  tool_panel_section_label: Operate on Genomic Intervals
- name: get_flanks
  owner: devteam
  revisions:
  - 4cd116158aef
  - a72f0decd7b3
  tool_panel_section_label: Text Manipulation
- name: complement
  owner: devteam
  revisions:
  - e0a23ab32d7f
  - d958d5a0d1e8
  tool_panel_section_label: Operate on Genomic Intervals
- name: subtract
  owner: devteam
  revisions:
  - 7a2a604ae9c8
  - 5bc2dacbe729
  tool_panel_section_label: Join, Subtract and Group
- name: basecoverage
  owner: devteam
  revisions:
  - 0a3e3133b09d
  - 1e6a9e97fa41
  tool_panel_section_label: Operate on Genomic Intervals
- name: subtract_query
  owner: devteam
  revisions:
  - 960d5d114184
  tool_panel_section_label: Text Manipulation
- name: dna_filtering
  owner: devteam
  revisions:
  - 549d2cb4c6f2
  tool_panel_section_label: Text Manipulation
- name: collection_column_join
  owner: iuc
  revisions:
  - dfde09461b1e
  - 9c8536c7ed42
  tool_panel_section_label: Join, Subtract and Group
- name: suite_datamash
  owner: iuc
  revisions:
  - fbe724ced39e
  tool_panel_section_label: Join, Subtract and Group
- name: subtract
  owner: devteam
  revisions:
  - 7a2a604ae9c8
  - 5bc2dacbe729
  tool_panel_section_label: Join, Subtract and Group
- name: bam_to_scidx
  owner: iuc
  revisions:
  - b737f6d83f48
  - 11fc60f0e942
  tool_panel_section_label: Convert Formats
- name: resize_coordinate_window
  owner: iuc
  revisions:
  - 541f300f322d
  - 08b6255afde7
  tool_panel_section_label: Convert Formats
- name: gffread
  owner: devteam
  revisions:
  - 0232f19d300f
  - 9f243677c4c6
  tool_panel_section_label: Convert Formats
- name: ucsc_twobittofa
  owner: iuc
  revisions:
  - d025a40bbff1
  - 4a81db403bd9
  tool_panel_section_label: Convert Formats
- name: tabular_to_fasta
  owner: devteam
  revisions:
  - 0b4e36026794
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fasta_to_tabular
  owner: devteam
  revisions:
  - 7e801ab2b70e
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastqtofasta
  owner: devteam
  revisions:
  - 723b5b38d88a
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_to_fasta
  owner: devteam
  revisions:
  - 186b8d913e6c
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: length_and_gc_content
  owner: iuc
  revisions:
  - 2ca1baabdae0
  tool_panel_section_label: Extract Features
- name: extract_genomic_dna
  owner: iuc
  revisions:
  - c8467246b57e
  - 8dd8e89c0603
  tool_panel_section_label: Other Tools
- name: concat
  owner: devteam
  revisions:
  - d491589307e7
  tool_panel_section_label: Operate on Genomic Intervals
- name: complement
  owner: devteam
  revisions:
  - e0a23ab32d7f
  - d958d5a0d1e8
  tool_panel_section_label: Operate on Genomic Intervals
- name: cluster
  owner: devteam
  revisions:
  - 765ceb06c3e2
  - d5677eecbad4
  tool_panel_section_label: Operate on Genomic Intervals
- name: basecoverage
  owner: devteam
  revisions:
  - 0a3e3133b09d
  - 1e6a9e97fa41
  tool_panel_section_label: Operate on Genomic Intervals
- name: annotation_profiler
  owner: devteam
  revisions:
  - 3b33da018e74
  tool_panel_section_label: Operate on Genomic Intervals
- name: t_test_two_samples
  owner: devteam
  revisions:
  - c2ffc9885b5a
  - e6a85a9297b3
  tool_panel_section_label: Statistics
- name: plot_from_lda
  owner: devteam
  revisions:
  - 08affc5d2aef
  tool_panel_section_label: Statistics
- name: mine
  owner: devteam
  revisions:
  - 5e2c89443c44
  tool_panel_section_label: Statistics
- name: lda_analysis
  owner: devteam
  revisions:
  - f0b6217f4a0c
  tool_panel_section_label: Statistics
- name: generate_pc_lda_matrix
  owner: devteam
  revisions:
  - 04cdbd00dcec
  tool_panel_section_label: Statistics
- name: count_gff_features
  owner: devteam
  revisions:
  - fabda887a71f
  tool_panel_section_label: Statistics
- name: correlation
  owner: devteam
  revisions:
  - 24e01abf9e34
  tool_panel_section_label: Statistics
- name: fasta_nucleotide_color_plot
  owner: iuc
  revisions:
  - 0fba45ac3987
  - 980917b09eb8
  tool_panel_section_label: Graph/Display Data
- name: jbrowse
  owner: iuc
  revisions:
  - 69c5e9c0add0
  - 2c9e5136b416
  tool_panel_section_label: Graph/Display Data
- name: ucsc_custom_track
  owner: devteam
  revisions:
  - 760f588e8a26
  tool_panel_section_label: Graph/Display Data
- name: scatterplot
  owner: devteam
  revisions:
  - efda9a4a50e7
  - d243056b22ed
  tool_panel_section_label: Graph/Display Data
- name: histogram
  owner: devteam
  revisions:
  - cdb9e89e2970
  tool_panel_section_label: Graph/Display Data
- name: gmaj
  owner: devteam
  revisions:
  - 2cd5ee197ec7
  tool_panel_section_label: Graph/Display Data
- name: xy_plot
  owner: devteam
  revisions:
  - 319fa5a9fc1b
  - 23657fcaaa5c
  tool_panel_section_label: Graph/Display Data
- name: featurecounter
  owner: devteam
  revisions:
  - ac6218e2b686
  tool_panel_section_label: Regional Variation
- name: indels_3way
  owner: devteam
  revisions:
  - 5ad24b81dd10
  tool_panel_section_label: Regional Variation
- name: draw_stacked_barplots
  owner: devteam
  revisions:
  - e997b710e38a
  tool_panel_section_label: Regional Variation
- name: delete_overlapping_indels
  owner: devteam
  revisions:
  - f16000dc644b
  tool_panel_section_label: Regional Variation
- name: compute_motifs_frequency
  owner: devteam
  revisions:
  - 1f8ee7f9701b
  tool_panel_section_label: Regional Variation
- name: compute_motif_frequencies_for_all_motifs
  owner: devteam
  revisions:
  - 5319efa51514
  tool_panel_section_label: Regional Variation
- name: categorize_elements_satisfying_criteria
  owner: devteam
  revisions:
  - 586c1f0e1515
  tool_panel_section_label: Regional Variation
- name: best_regression_subsets
  owner: devteam
  revisions:
  - 4f33ec73e445
  - e769cde223a5
  tool_panel_section_label: Statistics
- name: principal_component_analysis
  owner: devteam
  revisions:
  - f568051cdf2e
  tool_panel_section_label: Statistics
- name: kernel_principal_component_analysis
  owner: devteam
  revisions:
  - 3d58aa83e4a3
  tool_panel_section_label: Statistics
- name: kernel_canonical_correlation_analysis
  owner: devteam
  revisions:
  - 5ce5a2adb875
  tool_panel_section_label: Statistics
- name: canonical_correlation_analysis
  owner: devteam
  revisions:
  - 9bc0c48a027f
  tool_panel_section_label: Statistics
- name: mutate_snp_codon
  owner: devteam
  revisions:
  - 8f0af7251167
  tool_panel_section_label: Evolution
- name: meme_meme
  owner: iuc
  revisions:
  - e8b209806a20
  - d20e391eb22f
  tool_panel_section_label: Motif Tools
- name: meme_fimo
  owner: iuc
  revisions:
  - 40b8472e91ca
  - fd522a964017
  tool_panel_section_label: Motif Tools
- name: weblogo3
  owner: devteam
  revisions:
  - c1a9e644d580
  tool_panel_section_label: Motif Tools
- name: clustalw
  owner: devteam
  revisions:
  - d6694932c5e0
  - f8aad74cc8c1
  tool_panel_section_label: Multiple Alignments
- name: vegan_diversity
  owner: iuc
  revisions:
  - db56c8e79b1e
  - c58e19ff504a
  tool_panel_section_label: Metagenomic analyses
- name: vegan_fisher_alpha
  owner: iuc
  revisions:
  - d6b92ca3a9a1
  - a5a453f92273
  tool_panel_section_label: Metagenomic analyses
- name: vegan_rarefaction
  owner: iuc
  revisions:
  - dd2705a31239
  - 3d1d965b6423
  tool_panel_section_label: Metagenomic analyses
- name: vsearch
  owner: iuc
  revisions:
  - 576963db5f1b
  - fae6527990af
  tool_panel_section_label: Metagenomic analyses
- name: khmer_filter_abundance
  owner: iuc
  revisions:
  - a4970dfc331c
  tool_panel_section_label: Metagenomic analyses
- name: khmer_filter_below_abundance_cutoff
  owner: iuc
  revisions:
  - d9cc87dfec6e
  tool_panel_section_label: Metagenomic analyses
- name: khmer_extract_partitions
  owner: iuc
  revisions:
  - 7d8138b4a593
  tool_panel_section_label: Metagenomic analyses
- name: khmer_abundance_distribution
  owner: iuc
  revisions:
  - a02efb62565b
  tool_panel_section_label: Metagenomic analyses
- name: khmer_count_median
  owner: iuc
  revisions:
  - 5efc5f21d0c1
  tool_panel_section_label: Metagenomic analyses
- name: khmer_partition
  owner: iuc
  revisions:
  - c393687bd857
  tool_panel_section_label: Metagenomic analyses
- name: khmer_normalize_by_median
  owner: iuc
  revisions:
  - f0290a079720
  tool_panel_section_label: Metagenomic analyses
- name: khmer_abundance_distribution_single
  owner: iuc
  revisions:
  - 792d520ba676
  tool_panel_section_label: Metagenomic analyses
- name: t2t_report
  owner: devteam
  revisions:
  - 592acb9505fc
  tool_panel_section_label: Metagenomic analyses
- name: t2ps
  owner: devteam
  revisions:
  - 4d9910e996f7
  tool_panel_section_label: Metagenomic analyses
- name: poisson2test
  owner: devteam
  revisions:
  - 5ff18ec88181
  tool_panel_section_label: Metagenomic analyses
- name: lca_wrapper
  owner: devteam
  revisions:
  - 33e8ed5a4601
  tool_panel_section_label: Metagenomic analyses
- name: gi2taxonomy
  owner: devteam
  revisions:
  - 7b1b03c4465d
  tool_panel_section_label: Metagenomic analyses
- name: find_diag_hits
  owner: devteam
  revisions:
  - acf51ff24c7d
  tool_panel_section_label: Metagenomic analyses
- name: fasta_merge_files_and_filter_unique_sequences
  owner: galaxyp
  revisions:
  - 9ad0d336e5ed
  - 2904d46167da
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: sickle
  owner: iuc
  revisions:
  - 3905ccd5c631
  - edaa8572219d
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_paired_end_interlacer
  owner: devteam
  revisions:
  - ec6ddf449651
  - b89bdf6acb6c
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_paired_end_joiner
  owner: devteam
  revisions:
  - 6a7f5da7c76d
  - 2793d1d765b9
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fasta_compute_length
  owner: devteam
  revisions:
  - de2db1bdfbf8
  - d8cc2c8eef14
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: pear
  owner: iuc
  revisions:
  - 240f611a46f3
  - 581e52f03c5d
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastx_artifacts_filter
  owner: devteam
  revisions:
  - 09070cacefd8
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastx_barcode_splitter
  owner: devteam
  revisions:
  - 8abdedf55101
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastx_clipper
  owner: devteam
  revisions:
  - bdf1ce174e39
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastx_nucleotides_distribution
  owner: devteam
  revisions:
  - 63d6e2daad48
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fasta_filter_by_length
  owner: devteam
  revisions:
  - c8cd0a03db49
  - 2fd6033d0e9c
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fasta_concatenate_by_species
  owner: devteam
  revisions:
  - 717aee069681
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastx_collapser
  owner: devteam
  revisions:
  - 421f0af4ee95
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fasta_nucleotide_changer
  owner: devteam
  revisions:
  - f81d4362b6c1
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fasta_formatter
  owner: devteam
  revisions:
  - 9457a20156db
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastqc
  owner: devteam
  revisions:
  - 484e86282f4b
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  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_paired_end_joiner
  owner: devteam
  revisions:
  - 6a7f5da7c76d
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  tool_panel_section_label: 'NGS: QC and manipulation'
- name: short_reads_trim_seq
  owner: devteam
  revisions:
  - 25e6fe525306
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: short_reads_figure_score
  owner: devteam
  revisions:
  - b52b9c7aabd9
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: tabular_to_fastq
  owner: devteam
  revisions:
  - 92034dcbb40a
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_trimmer_by_quality
  owner: devteam
  revisions:
  - 25c24379693a
  - 04a609b0fdf6
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_trimmer
  owner: devteam
  revisions:
  - e0cfb5a703ce
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_to_tabular
  owner: devteam
  revisions:
  - 7da7ddea4425
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_stats
  owner: devteam
  revisions:
  - daaf552153fe
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_paired_end_splitter
  owner: devteam
  revisions:
  - c80bce242eec
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_paired_end_interlacer
  owner: devteam
  revisions:
  - ec6ddf449651
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  tool_panel_section_label: 'NGS: QC and manipulation'
- name: fastq_paired_end_deinterlacer
  owner: devteam
  revisions:
  - f0949bc49926
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_masker_by_quality
  owner: devteam
  revisions:
  - 9d234265981e
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_manipulation
  owner: devteam
  revisions:
  - bb07615a5b6a
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_groomer
  owner: devteam
  revisions:
  - e4d28c94242d
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_filter
  owner: devteam
  revisions:
  - b957f55f3955
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_combiner
  owner: devteam
  revisions:
  - e711d52c7509
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastx_trimmer
  owner: devteam
  revisions:
  - 377ac2829eac
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastx_reverse_complement
  owner: devteam
  revisions:
  - e246088b6e34
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastx_renamer
  owner: devteam
  revisions:
  - 02f8a17a4ebd
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastx_quality_statistics
  owner: devteam
  revisions:
  - 7306ec78632a
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_quality_filter
  owner: devteam
  revisions:
  - e41385662e5e
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_quality_converter
  owner: devteam
  revisions:
  - 74db4cffab1f
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: fastq_quality_boxplot
  owner: devteam
  revisions:
  - f95284aa2946
  tool_panel_section_label: FASTA/FASTQ manipulation
- name: rnaspades
  owner: iuc
  revisions:
  - 9e58ff014088
  - 0d30fed9628b
  tool_panel_section_label: Assembly
- name: unicycler
  owner: iuc
  revisions:
  - e9c1cdb9f9dc
  tool_panel_section_label: Assembly
- name: tophat2
  owner: devteam
  revisions:
  - 16c4255042be
  - ae06af1118dc
  tool_panel_section_label: Mapping
- name: bowtie2
  owner: devteam
  revisions:
  - a9d4f71dbfb0
  - a54de7e658f7
  tool_panel_section_label: Mapping
- name: rgrnastar
  owner: iuc
  revisions:
  - 318b2a9d54dd
  - bc685d13b637
  tool_panel_section_label: Mapping
- name: hisat2
  owner: iuc
  revisions:
  - 2ec097c8e843
  - 6d4d39720545
  tool_panel_section_label: Mapping
- name: bowtie_wrappers
  owner: devteam
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