tools_iuc.yaml.lock

install_repository_dependencies: true
install_resolver_dependencies: true
install_tool_dependencies: false
tools:
- name: anndata_import
  owner: iuc
  revisions:
  - 69e2275406fd
  - a61350ab6563
  tool_panel_section_label: Single-cell
- name: anndata_export
  owner: iuc
  revisions:
  - a9ab1b0a00dd
  - fcb7370e827f
  tool_panel_section_label: Single-cell
- name: anndata_manipulate
  owner: iuc
  revisions:
  - 0ef28c0963c8
  - 19592ec717ef
  tool_panel_section_label: Single-cell
- name: anndata_inspect
  owner: iuc
  revisions:
  - 05304c5c195d
  - b2a6ce371781
  tool_panel_section_label: Single-cell
- name: bedtools
  owner: iuc
  revisions:
  - 4f7a5ccd2ae9
  - 6bb3cd018203
  - b28e0cfa7ba1
  - b8348686a0b9
  - dde39ba9c031
  - e19bebe96cd2
  tool_panel_section_label: Operate on Genomic Intervals
- name: collection_element_identifiers
  owner: iuc
  revisions:
  - 220ee3518f19
  - d3c07d270a50
  tool_panel_section_label: Collection Operations
- name: crosscontamination_barcode_filter
  owner: iuc
  revisions:
  - 253c9448f524
  - 582b7bd4ae4c
  - 5ade5cf200da
  tool_panel_section_label: RNA Analysis
- name: deg_annotate
  owner: iuc
  revisions:
  - b42373cddb77
  - e98d4ab5b5bc
  tool_panel_section_label: RNA Analysis
- name: dropletutils
  owner: iuc
  revisions:
  - 4cd9f0008d9c
  - a8aa294401be
  - cfe1e6c28d95
  - f0de368eabca
  tool_panel_section_label: Single-cell
- name: raceid_inspectclusters
  owner: iuc
  revisions:
  - 0fa80752a314
  - '106718959281'
  - 20f522154663
  - 9fec5dd8fbb9
  tool_panel_section_label: Single-cell
- name: raceid_filtnormconf
  owner: iuc
  revisions:
  - 56a093c2a3f9
  - 5d5b14dbd092
  - 8dc8ff057b0f
  - d55e29ac02e3
  tool_panel_section_label: Single-cell
- name: raceid_clustering
  owner: iuc
  revisions:
  - 4ea021bd7513
  - 528a43b1cbcf
  - ee0bbc160cb1
  tool_panel_section_label: Single-cell
- name: raceid_trajectory
  owner: iuc
  revisions:
  - 3e5bb16abb55
  - 87de515af823
  - da7ff78fe296
  - ff7cd3c7c1df
  tool_panel_section_label: Single-cell
- name: raceid_inspecttrajectory
  owner: iuc
  revisions:
  - 4164c0da0a5d
  - 5156383d3a5d
  - 86e2358cf273
  - e0e9b24d76aa
  tool_panel_section_label: Single-cell
- name: kallisto_quant
  owner: iuc
  revisions:
  - 10c98fab6c5a
  - 59a4c97b85d6
  - 60f888039fb2
  - b818b23df1e0
  tool_panel_section_label: RNA Analysis
- name: mixcr_analyze
  owner: iuc
  revisions:
  - d38cfb922f95
  tool_panel_section_label: Variant Calling
- name: gatk4_mutect2
  owner: iuc
  revisions:
  - f41a1e03538b
  tool_panel_section_label: Variant Calling
- name: slamdunk
  owner: iuc
  revisions:
  - 24657d5edede
  - 3fd7458bc861
  - fe3fe68b09a7
  tool_panel_section_label: RNA Analysis
- name: plasflow
  owner: iuc
  revisions:
  - bda6012394f7
  tool_panel_section_label: Metagenomic Analysis
- name: data_manager_dada2
  owner: iuc
  revisions:
  - f57c13f5878b
  tool_panel_section_label: Data Managers
- name: dada2_filterandtrim
  owner: iuc
  revisions:
  - cc41546adf56
  tool_panel_section_label: Metagenomic Analysis
- name: dada2_dada
  owner: iuc
  revisions:
  - ce4aec98949d
  tool_panel_section_label: Metagenomic Analysis
- name: dada2_removebimeradenovo
  owner: iuc
  revisions:
  - 1937c2b4da7a
  tool_panel_section_label: Metagenomic Analysis
- name: dada2_learnerrors
  owner: iuc
  revisions:
  - fd892c845981
  tool_panel_section_label: Metagenomic Analysis
- name: dada2_makesequencetable
  owner: iuc
  revisions:
  - 6e0946238688
  tool_panel_section_label: Metagenomic Analysis
- name: dada2_assigntaxonomyaddspecies
  owner: iuc
  revisions:
  - 18517edb4733
  tool_panel_section_label: Metagenomic Analysis
- name: dada2_seqcounts
  owner: iuc
  revisions:
  - d26cea4b4cc4
  tool_panel_section_label: Metagenomic Analysis
- name: dada2_mergepairs
  owner: iuc
  revisions:
  - 805daed21ef3
  tool_panel_section_label: Metagenomic Analysis
- name: dada2_plotcomplexity
  owner: iuc
  revisions:
  - ab2030f217a9
  tool_panel_section_label: Metagenomic Analysis
- name: dada2_plotqualityprofile
  owner: iuc
  revisions:
  - 371afe17d247
  tool_panel_section_label: Metagenomic Analysis
- name: pipelign
  owner: iuc
  revisions:
  - cd9d1eccda7e
  tool_panel_section_label: Multiple Alignments
- name: ruvseq
  owner: iuc
  revisions:
  - 61dffb20b6f9
  - c24765926774
  tool_panel_section_label: RNA Analysis
- name: kallisto_pseudo
  owner: iuc
  revisions:
  - 1c75aa5de15e
  - 2953303df011
  - 5ae5c312d718
  - 63f76b9f4ba7
  tool_panel_section_label: RNA Analysis
- name: scpipe
  owner: iuc
  revisions:
  - 4ec6717872b1
  - 5c4bca9dd4a2
  tool_panel_section_label: RNA Analysis
- name: seurat
  owner: iuc
  revisions:
  - 8d8412d35247
  tool_panel_section_label: RNA Analysis
- name: feelnc
  owner: iuc
  revisions:
  - 17a77824c8e4
  - b36afbb04e1c
  tool_panel_section_label: RNA Analysis
- name: volcanoplot
  owner: iuc
  revisions:
  - 59ebf2c42c0e
  - 6d532d760950
  - 73b8cb5bddcd
  - d1d39c72b755
  tool_panel_section_label: Graph/Display Data
- name: nanoplot
  owner: iuc
  revisions:
  - 4c172a4a4c9e
  - 645159bcee2d
  - acd337269171
  - db1eeffba23e
  tool_panel_section_label: Nanopore
- name: intervene
  owner: iuc
  revisions:
  - f5fa293605ca
  tool_panel_section_label: Graph/Display Data
- name: charts
  owner: iuc
  revisions:
  - a87a3773d8ed
  tool_panel_section_label: Graph/Display Data
- name: ggplot2_pca
  owner: iuc
  revisions:
  - 1b9406a1a769
  - bb6ec8e5387f
  - c21099566418
  tool_panel_section_label: Graph/Display Data
- name: pygenometracks
  owner: iuc
  revisions:
  - 0ea86f6bf2a1
  - 2074627b0f83
  - c171f2b7d76e
  - c237ba772225
  - feab9265552d
  tool_panel_section_label: Graph/Display Data
- name: ggplot2_heatmap
  owner: iuc
  revisions:
  - de002ba2b849
  - f44dc95928aa
  - fe8d4655ee10
  tool_panel_section_label: Graph/Display Data
- name: ggplot2_violin
  owner: iuc
  revisions:
  - 3a270cee1239
  - 43778344b955
  - 637cf21db396
  - a597d59df9ee
  - d85535076554
  tool_panel_section_label: Graph/Display Data
- name: ggplot2_heatmap2
  owner: iuc
  revisions:
  - 4955e9bb96d1
  - 76380bf74511
  - ca7cb0eaad62
  - cb04f3235a4e
  tool_panel_section_label: Graph/Display Data
- name: ggplot2_point
  owner: iuc
  revisions:
  - 1bff6682e780
  - 46f91106439b
  - 9a482995958c
  - 9cec81e1b90e
  - a78aa83f6625
  tool_panel_section_label: Graph/Display Data
- name: ggplot2_histogram
  owner: iuc
  revisions:
  - 1f0242e49a58
  - 536078949ae4
  - 63a595b451d1
  - 9d060114554c
  - d3d92fb20389
  - f52035800250
  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:
  - 014a21767ac4
  tool_panel_section_label: Graph/Display Data
- name: ebi_search_rest_results
  owner: iuc
  revisions:
  - 42d5e40fcd0b
  tool_panel_section_label: Get Data
- name: ebi_metagenomics_run_downloader
  owner: iuc
  revisions:
  - a1ef6c88ee37
  - e2e9fae080ad
  tool_panel_section_label: Get Data
- name: table_compute
  owner: iuc
  revisions:
  - 02c3e335a695
  - 60ff16842fcd
  tool_panel_section_label: Text Manipulation
- name: column_maker
  owner: devteam
  revisions:
  - 464b9305180e
  - 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:
  - 1790dcf3c32d
  - 26b7446bb17e
  - 5534eb46de20
  - 5e6237d58b0c
  - b723c120161a
  - f5ea3ce9b9b0
  tool_panel_section_label: Get Data
- name: codeml
  owner: iuc
  revisions:
  - 961a712f9743
  - ba71e26d5bdc
  tool_panel_section_label: Evolution
- 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:
  - 7a15159140d1
  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: maxbin2
  owner: mbernt
  revisions:
  - 6a638de7915c
  tool_panel_section_label: Metagenomic Analysis
- name: column_maker
  owner: devteam
  revisions:
  - 464b9305180e
  - 626658afe4cb
  tool_panel_section_label: Text Manipulation
- name: coverage
  owner: devteam
  revisions:
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  tool_panel_section_label: Text Manipulation
- name: tables_arithmetic_operations
  owner: devteam
  revisions:
  - 2e9f3b6ebfbc
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  tool_panel_section_label: Text Manipulation
- name: merge
  owner: devteam
  revisions:
  - 0926c81f382c
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  tool_panel_section_label: Text Manipulation
- name: intersect
  owner: devteam
  revisions:
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  tool_panel_section_label: Text Manipulation
- name: flanking_features
  owner: devteam
  revisions:
  - 8307665c4b6c
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  tool_panel_section_label: Text Manipulation
- name: join
  owner: devteam
  revisions:
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  tool_panel_section_label: Text Manipulation
- name: cluster
  owner: devteam
  revisions:
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  tool_panel_section_label: Text Manipulation
- name: get_flanks
  owner: devteam
  revisions:
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  tool_panel_section_label: Text Manipulation
- name: complement
  owner: devteam
  revisions:
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  tool_panel_section_label: Text Manipulation
- name: subtract
  owner: devteam
  revisions:
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  tool_panel_section_label: Text Manipulation
- name: basecoverage
  owner: devteam
  revisions:
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  tool_panel_section_label: Text Manipulation
- name: subtract_query
  owner: devteam
  revisions:
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  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:
  - 071084070619
  - 58228a4d58fe
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  tool_panel_section_label: Join, Subtract and Group
- name: subtract
  owner: devteam
  revisions:
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  tool_panel_section_label: Join, Subtract and Group
- name: crossmap_bam
  owner: iuc
  revisions:
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  tool_panel_section_label: Convert Formats
- name: crossmap_bed
  owner: iuc
  revisions:
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  tool_panel_section_label: Convert Formats
- name: crossmap_gff
  owner: iuc
  revisions:
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  tool_panel_section_label: Convert Formats
- name: crossmap_vcf
  owner: iuc
  revisions:
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  tool_panel_section_label: Convert Formats
- name: crossmap_wig
  owner: iuc
  revisions:
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  tool_panel_section_label: Convert Formats
- name: bam_to_scidx
  owner: iuc
  revisions:
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  tool_panel_section_label: Convert Formats
- name: resize_coordinate_window
  owner: iuc
  revisions:
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  tool_panel_section_label: Convert Formats
- name: gffread
  owner: devteam
  revisions:
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  tool_panel_section_label: Convert Formats
- name: ucsc_twobittofa
  owner: iuc
  revisions:
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  tool_panel_section_label: Convert Formats
- name: bax2bam
  owner: iuc
  revisions:
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  tool_panel_section_label: Convert Formats
- name: tabular_to_fasta
  owner: devteam
  revisions:
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  tool_panel_section_label: FASTA/FASTQ
- name: filtlong
  owner: iuc
  revisions:
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  tool_panel_section_label: FASTA/FASTQ
- name: fasta_to_tabular
  owner: devteam
  revisions:
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  tool_panel_section_label: FASTA/FASTQ
- name: fastqtofasta
  owner: devteam
  revisions:
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  tool_panel_section_label: FASTA/FASTQ
- name: fastq_to_fasta
  owner: devteam
  revisions:
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  tool_panel_section_label: FASTA/FASTQ
- name: fastp
  owner: iuc
  revisions:
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  tool_panel_section_label: FASTA/FASTQ
- name: fasta_stats
  owner: iuc
  revisions:
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  tool_panel_section_label: FASTA/FASTQ
- name: length_and_gc_content
  owner: iuc
  revisions:
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  tool_panel_section_label: Extract Features
- name: extract_genomic_dna
  owner: iuc
  revisions:
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  tool_panel_section_label: Other Tools
- name: concat
  owner: devteam
  revisions:
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  tool_panel_section_label: Operate on Genomic Intervals
- name: complement
  owner: devteam
  revisions:
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  tool_panel_section_label: Operate on Genomic Intervals
- name: cluster
  owner: devteam
  revisions:
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  tool_panel_section_label: Operate on Genomic Intervals
- name: basecoverage
  owner: devteam
  revisions:
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  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:
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  tool_panel_section_label: Statistics
- name: plot_from_lda
  owner: devteam
  revisions:
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  tool_panel_section_label: Statistics
- name: mine
  owner: devteam
  revisions:
  - 5e2c89443c44
  tool_panel_section_label: Statistics
- name: lda_analysis
  owner: devteam
  revisions:
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  tool_panel_section_label: Statistics
- name: generate_pc_lda_matrix
  owner: devteam
  revisions:
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  tool_panel_section_label: Statistics
- name: count_gff_features
  owner: devteam
  revisions:
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  tool_panel_section_label: Statistics
- name: correlation
  owner: devteam
  revisions:
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  tool_panel_section_label: Statistics
- name: fasta_nucleotide_color_plot
  owner: iuc
  revisions:
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  tool_panel_section_label: Graph/Display Data
- name: jbrowse
  owner: iuc
  revisions:
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  tool_panel_section_label: Graph/Display Data
- name: ucsc_custom_track
  owner: devteam
  revisions:
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  tool_panel_section_label: Graph/Display Data
- name: scatterplot
  owner: devteam
  revisions:
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  tool_panel_section_label: Graph/Display Data
- name: histogram
  owner: devteam
  revisions:
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  tool_panel_section_label: Graph/Display Data
- name: gmaj
  owner: devteam
  revisions:
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  tool_panel_section_label: Graph/Display Data
- name: xy_plot
  owner: devteam
  revisions:
  - 23657fcaaa5c
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  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
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  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
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  tool_panel_section_label: Variant Calling
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