tools_iuc.yaml.lock

install_repository_dependencies: true
install_resolver_dependencies: true
install_tool_dependencies: false
tools:
- name: busco
  owner: iuc
  revisions:
  - 602fb8e63aa7
  tool_panel_section_label: Annotation
- name: ena_upload
  owner: iuc
  revisions:
  - 382518f24d6d
  tool_panel_section_label: Send Data
- name: flair_collapse
  owner: iuc
  revisions:
  - 57dc46adf2da
  tool_panel_section_label: Nanopore
- name: flair_correct
  owner: iuc
  revisions:
  - 6927379c9ede
  tool_panel_section_label: Nanopore
- name: ngmlr
  owner: iuc
  revisions:
  - 95e4757d8da7
  tool_panel_section_label: Nanopore
- name: ont_fast5_api_fast5_subset
  owner: iuc
  revisions:
  - 33a0ff1bb7df
  - 3bdd8fa109b1
  tool_panel_section_label: Nanopore
- name: ont_fast5_api_compress_fast5
  owner: iuc
  revisions:
  - 52da1e2c82d3
  - 7147b894702a
  tool_panel_section_label: Nanopore
- name: ont_fast5_api_single_to_multi_fast5
  owner: iuc
  revisions:
  - ceec541f4955
  - ea77d69db382
  tool_panel_section_label: Nanopore
- name: ont_fast5_api_multi_to_single_fast5
  owner: iuc
  revisions:
  - 1a37f742e7d7
  - 68fc6a9c05df
  tool_panel_section_label: Nanopore
- name: deeptools_estimatereadfiltering
  owner: bgruening
  revisions:
  - 71082dac170c
  tool_panel_section_label: deepTools
- name: deeptools_plot_enrichment
  owner: bgruening
  revisions:
  - e65d16fb2724
  tool_panel_section_label: deepTools
- name: deeptools_alignmentsieve
  owner: bgruening
  revisions:
  - 6531acf8209f
  tool_panel_section_label: deepTools
- name: deeptools_compute_matrix_operations
  owner: bgruening
  revisions:
  - ee3a1b0f45f1
  tool_panel_section_label: deepTools
- name: deeptools_plot_fingerprint
  owner: bgruening
  revisions:
  - 2da482e408b8
  tool_panel_section_label: deepTools
- name: deeptools_plot_coverage
  owner: bgruening
  revisions:
  - 56bce3c82278
  tool_panel_section_label: deepTools
- name: deeptools_plot_correlation
  owner: bgruening
  revisions:
  - 32e451def88c
  tool_panel_section_label: deepTools
- name: deeptools_plot_profile
  owner: bgruening
  revisions:
  - c361b12d207a
  tool_panel_section_label: deepTools
- name: deeptools_multi_bigwig_summary
  owner: bgruening
  revisions:
  - 3c9f0c486cca
  tool_panel_section_label: deepTools
- name: deeptools_compute_gc_bias
  owner: bgruening
  revisions:
  - 2bc10a9ca58b
  tool_panel_section_label: deepTools
- name: deeptools_compute_matrix
  owner: bgruening
  revisions:
  - 514fa53b5efb
  tool_panel_section_label: deepTools
- name: deeptools_plot_pca
  owner: bgruening
  revisions:
  - 69264da0ce77
  tool_panel_section_label: deepTools
- name: deeptools_multi_bam_summary
  owner: bgruening
  revisions:
  - 78f405266706
  tool_panel_section_label: deepTools
- name: deeptools_correct_gc_bias
  owner: bgruening
  revisions:
  - 2c37ce318bc3
  tool_panel_section_label: deepTools
- name: deeptools_plot_heatmap
  owner: bgruening
  revisions:
  - a4dfb122e52b
  tool_panel_section_label: deepTools
- name: deeptools_bigwig_compare
  owner: bgruening
  revisions:
  - 26e7304d6737
  tool_panel_section_label: deepTools
- name: deeptools_bam_pe_fragmentsize
  owner: bgruening
  revisions:
  - 62eb6d63f582
  tool_panel_section_label: deepTools
- name: deeptools_bam_coverage
  owner: bgruening
  revisions:
  - bb1e4f63e0e6
  tool_panel_section_label: deepTools
- name: deeptools_bam_compare
  owner: bgruening
  revisions:
  - e821645ef8fc
  tool_panel_section_label: deepTools
- name: anndata_import
  owner: iuc
  revisions:
  - 00712416fdaa
  - 080eab96d846
  - 32e547223c9e
  - 69e2275406fd
  - a61350ab6563
  - ae1e5d9d8972
  - b5c7ba11401d
  - cfc3f5a57dc6
  - e175d4067b00
  tool_panel_section_label: Single-cell
- name: anndata_export
  owner: iuc
  revisions:
  - 016308443041
  - 32c5c85cbc12
  - 379014a57491
  - 8623710d083c
  - a9ab1b0a00dd
  - c0b037b12765
  - c5ac926c838f
  - e0395cca2c57
  - fcb7370e827f
  tool_panel_section_label: Single-cell
- name: anndata_manipulate
  owner: iuc
  revisions:
  - 0ef28c0963c8
  - 19592ec717ef
  - 4000634ece52
  - 43cb7b5a6fe7
  - 6db1b06e6bbb
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  - a56baceb1900
  - b03c60f8528f
  - b85871dd69f9
  - d4af736e7b83
  tool_panel_section_label: Single-cell
- name: chromeister
  owner: iuc
  revisions:
  - 7e2fe094981e
  - a6d1f83c46b4
  - adea31d84cb9
  tool_panel_section_label: Multiple Alignments
- name: gecko
  owner: iuc
  revisions:
  - 5efbd15675ca
  - 8acaa11e3b6b
  tool_panel_section_label: Multiple Alignments
- name: kc_align
  owner: iuc
  revisions:
  - 0c0288a9d92c
  - 1c65ddbaeefa
  - 8dc7708c3266
  tool_panel_section_label: Multiple Alignments
- name: anndata_inspect
  owner: iuc
  revisions:
  - 038e32885fec
  - 05304c5c195d
  - 286a24ac079c
  - 383dcb0500f9
  - 39e945f0b2c1
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  - 70f5f1fee692
  - b2a6ce371781
  - b9fac48532eb
  tool_panel_section_label: Single-cell
- name: modify_loom
  owner: iuc
  revisions:
  - 59be31ac9dc3
  - 7784821452ac
  - 81a28c2705b0
  - 9210c3553cdd
  - c8e4d0b9ae8c
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  tool_panel_section_label: Single-cell
- name: bedtools
  owner: iuc
  revisions:
  - 0a5c785ac6db
  - 4f7a5ccd2ae9
  - 6bb3cd018203
  - b28e0cfa7ba1
  - b8348686a0b9
  - dde39ba9c031
  - e19bebe96cd2
  tool_panel_section_label: BED
- name: collection_element_identifiers
  owner: iuc
  revisions:
  - 220ee3518f19
  - d3c07d270a50
  tool_panel_section_label: Collection Operations
- name: rnaquast
  owner: iuc
  revisions:
  - 33c060ec0ac9
  - e989670c7fc7
  tool_panel_section_label: RNA Analysis
- name: crosscontamination_barcode_filter
  owner: iuc
  revisions:
  - 253c9448f524
  - 582b7bd4ae4c
  - 5ade5cf200da
  tool_panel_section_label: RNA Analysis
- name: tximport
  owner: iuc
  revisions:
  - 206a71a69161
  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:
  - 1797cbe967d1
  - 2c1200fba922
  - 4cd9f0008d9c
  - 8855361fcfc5
  - a8aa294401be
  - cdf4443d5625
  - cfe1e6c28d95
  - f0de368eabca
  tool_panel_section_label: Single-cell
- name: raceid_inspectclusters
  owner: iuc
  revisions:
  - 0fa80752a314
  - '106718959281'
  - 20f522154663
  - 37a47c4fd84d
  - 9fec5dd8fbb9
  tool_panel_section_label: Single-cell
- name: raceid_filtnormconf
  owner: iuc
  revisions:
  - 56a093c2a3f9
  - 5d5b14dbd092
  - 7608d5faee41
  - 8dc8ff057b0f
  - d55e29ac02e3
  tool_panel_section_label: Single-cell
- name: raceid_clustering
  owner: iuc
  revisions:
  - 4ea021bd7513
  - 528a43b1cbcf
  - 7e014059a88d
  - ee0bbc160cb1
  tool_panel_section_label: Single-cell
- name: raceid_trajectory
  owner: iuc
  revisions:
  - 3e5bb16abb55
  - 44b935f2271b
  - 87de515af823
  - da7ff78fe296
  - ff7cd3c7c1df
  tool_panel_section_label: Single-cell
- name: raceid_inspecttrajectory
  owner: iuc
  revisions:
  - 4164c0da0a5d
  - 5156383d3a5d
  - 69018f285aa3
  - 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: strelka_germline
  owner: iuc
  revisions:
  - 1fbe84e8a740
  tool_panel_section_label: Variant Calling
- name: strelka_somatic
  owner: iuc
  revisions:
  - edbdbc64b397
  tool_panel_section_label: Variant Calling
- name: irissv
  owner: iuc
  revisions:
  - 30fc9f2bcbe4
  tool_panel_section_label: Variant Calling
- name: jasminesv
  owner: iuc
  revisions:
  - 630e2929a131
  tool_panel_section_label: Variant Calling
- name: vcfanno
  owner: iuc
  revisions:
  - fb20fa735dfe
  tool_panel_section_label: Variant Calling
- name: snpfreqplot
  owner: iuc
  revisions:
  - 3d0adeee3f2b
  - dc51db22310c
  tool_panel_section_label: Variant Calling
- name: lumpy_prep
  owner: iuc
  revisions:
  - 21f2361c32c9
  tool_panel_section_label: Variant Calling
- name: lumpy_sv
  owner: iuc
  revisions:
  - 477a07f387e0
  tool_panel_section_label: Variant Calling
- name: delly_cnv
  owner: iuc
  revisions:
  - d402af96808e
  tool_panel_section_label: Variant Calling
- name: delly_classify
  owner: iuc
  revisions:
  - d3bc6ec7881f
  tool_panel_section_label: Variant Calling
- name: delly_lr
  owner: iuc
  revisions:
  - 629a0066003d
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  tool_panel_section_label: Variant Calling
- name: delly_call
  owner: iuc
  revisions:
  - 36772204dee5
  - 53d90d86fc83
  - 9946bd542898
  tool_panel_section_label: Variant Calling
- name: delly_merge
  owner: iuc
  revisions:
  - '148389992630'
  - 6331d804f983
  - 97c7441aed0d
  tool_panel_section_label: Variant Calling
- name: delly_filter
  owner: iuc
  revisions:
  - 6184cfc70e28
  - 9919057a466c
  - a75e05f20a66
  tool_panel_section_label: Variant Calling
- name: sansa_annotate
  owner: iuc
  revisions:
  - fb00426402b0
  tool_panel_section_label: Variant Calling
- name: sniffles
  owner: iuc
  revisions:
  - 93c4b04a0769
  tool_panel_section_label: Variant Calling
- name: cutesv
  owner: iuc
  revisions:
  - c0f8fe52948e
  tool_panel_section_label: Variant Calling
- name: control_freec
  owner: iuc
  revisions:
  - 2c6349fb175c
  - e46944a59b31
  tool_panel_section_label: Variant Calling
- name: vardict_java
  owner: iuc
  revisions:
  - 2975b29bcaa1
  - 5f756651a1bc
  tool_panel_section_label: Variant Calling
- name: bcftools_concat
  owner: iuc
  revisions:
  - 874cc12ae316
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  tool_panel_section_label: Variant Calling
- name: medaka_consensus
  owner: iuc
  revisions:
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  tool_panel_section_label: Nanopore
- name: medaka_consensus_pipeline
  owner: iuc
  revisions:
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  tool_panel_section_label: Nanopore
- name: medaka_variant
  owner: iuc
  revisions:
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  tool_panel_section_label: Nanopore
- name: medaka_variant_pipeline
  owner: iuc
  revisions:
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  tool_panel_section_label: Nanopore
- name: artic_minion
  owner: iuc
  revisions:
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  tool_panel_section_label: Variant Calling
- name: vg_convert
  owner: iuc
  revisions:
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  tool_panel_section_label: Variant Calling
- name: vg_deconstruct
  owner: iuc
  revisions:
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  tool_panel_section_label: Variant Calling
- name: vg_view
  owner: iuc
  revisions:
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  tool_panel_section_label: Variant Calling
- name: odgi_build
  owner: iuc
  revisions:
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  tool_panel_section_label: Variant Calling
- name: odgi_viz
  owner: iuc
  revisions:
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  tool_panel_section_label: Variant Calling
- name: variant_analyzer
  owner: iuc
  revisions:
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  tool_panel_section_label: Variant Calling
- name: mixcr_analyze
  owner: iuc
  revisions:
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  tool_panel_section_label: Variant Calling
- name: gatk4_mutect2
  owner: iuc
  revisions:
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  tool_panel_section_label: Variant Calling
- name: plink
  owner: iuc
  revisions:
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  tool_panel_section_label: Variant Calling
- name: slamdunk
  owner: iuc
  revisions:
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  tool_panel_section_label: RNA Analysis
- name: drep_dereplicate
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: drep_compare
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: plasflow
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: mash
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: mash_sketch
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: cat_prepare
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: cat_bins
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: cat_contigs
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: cat_summarise
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: cat_add_names
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: graphembed
  owner: iuc
  revisions:
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  tool_panel_section_label: Statistics
- name: ega_download_client
  owner: iuc
  revisions:
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  tool_panel_section_label: Get Data
- name: data_manager_primer_scheme_bedfiles
  owner: iuc
  revisions:
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  tool_panel_section_label: Data Managers
- name: data_manager_mitos
  owner: iuc
  revisions:
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  tool_panel_section_label: Data Managers
- name: data_manager_mash_sketch_builder
  owner: iuc
  revisions:
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  tool_panel_section_label: Data Managers
- name: data_manager_dada2
  owner: iuc
  revisions:
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  tool_panel_section_label: Data Managers
- name: data_manager_cat
  owner: iuc
  revisions:
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  tool_panel_section_label: Data Managers
- name: dada2_filterandtrim
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: dada2_dada
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: dada2_removebimeradenovo
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: dada2_learnerrors
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: dada2_makesequencetable
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: dada2_assigntaxonomyaddspecies
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: dada2_seqcounts
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: dada2_mergepairs
  owner: iuc
  revisions:
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  tool_panel_section_label: Metagenomic Analysis
- name: dada2_plotcomplexity
  owner: iuc
  revisions:
  - 1728e5ee871a
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  tool_panel_section_label: Metagenomic Analysis
- name: dada2_plotqualityprofile
  owner: iuc
  revisions:
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  - 371afe17d247
  - 52a911972c02
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  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
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  tool_panel_section_label: RNA Analysis
- name: kallisto_pseudo
  owner: iuc
  revisions:
  - 1c75aa5de15e
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  - 5ae5c312d718
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  tool_panel_section_label: RNA Analysis
- name: scpipe
  owner: iuc
  revisions:
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  - 4ec6717872b1
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  tool_panel_section_label: RNA Analysis
- name: seurat
  owner: iuc
  revisions:
  - 06ed31cf52ed
  - 321bdd834266
  - 4c139a9415d7
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
- name: trinotate
  owner: iuc
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  tool_panel_section_label: RNA Analysis
- name: tophat_fusion_post
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  tool_panel_section_label: RNA Analysis
- name: stringtie
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  tool_panel_section_label: RNA Analysis
- name: dexseq
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  tool_panel_section_label: RNA Analysis
- name: cuffdiff
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  tool_panel_section_label: RNA Analysis
- name: cummerbund_to_tabular
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  tool_panel_section_label: RNA Analysis
- name: cummerbund
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  tool_panel_section_label: RNA Analysis
- name: cuffmerge
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
- name: cufflinks
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  tool_panel_section_label: RNA Analysis
- name: filter_transcripts_via_tracking
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  tool_panel_section_label: RNA Analysis
- name: express
  owner: devteam
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  tool_panel_section_label: RNA Analysis
- name: cufflinks
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  revisions:
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: RNA Analysis
- name: genrich
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  tool_panel_section_label: Peak Calling
- name: macs2
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  tool_panel_section_label: Peak Calling
- name: macs
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  tool_panel_section_label: Peak Calling
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  tool_panel_section_label: Peak Calling
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  tool_panel_section_label: Peak Calling
- name: ccat
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  tool_panel_section_label: Peak Calling
- name: bwameth
  owner: iuc
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  tool_panel_section_label: Epigenetics
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  tool_panel_section_label: Epigenetics
- name: seacr
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  tool_panel_section_label: Epigenetics
- name: basil
  owner: iuc
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  tool_panel_section_label: Variant Calling
- name: varscan_mpileup
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  tool_panel_section_label: Variant Calling
- name: varscan_somatic
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  tool_panel_section_label: Variant Calling
- name: varscan_copynumber
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  tool_panel_section_label: Variant Calling
- name: freebayes
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  tool_panel_section_label: Variant Calling
- name: ococo
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  tool_panel_section_label: Variant Calling
- name: snippy
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  tool_panel_section_label: Variant Calling
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  tool_panel_section_label: Phenotype Association
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  tool_panel_section_label: Phenotype Association
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  tool_panel_section_label: Phenotype Association
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  tool_panel_section_label: Phenotype Association
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  tool_panel_section_label: Phenotype Association
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  tool_panel_section_label: Phenotype Association
- name: mitos
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: RNA Analysis
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Variant Calling
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Annotation
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  tool_panel_section_label: Variant Calling
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  tool_panel_section_label: Variant Calling
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  tool_panel_section_label: Variant Calling
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  tool_panel_section_label: Variant Calling
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  tool_panel_section_label: Variant Calling
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  tool_panel_section_label: Variant Calling
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  tool_panel_section_label: Variant Calling
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  tool_panel_section_label: Variant Calling
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  revisions:
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