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@ksuderman
Created March 30, 2021 21:44
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Latest Tools
tools:
- name: sra_tools
owner: iuc
revisions:
- f5ea3ce9b9b0
- e08a7ad4378b
tool_panel_section_label: Get Data
tool_shed_url: toolshed.g2.bx.psu.edu
- name: ncbi_acc_download
owner: iuc
revisions:
- 1c58de56d587
tool_panel_section_label: Get Data
tool_shed_url: toolshed.g2.bx.psu.edu
- name: collapse_collections
owner: nml
revisions:
- 90981f86000f
tool_panel_section_label: Collection Operations
tool_shed_url: toolshed.g2.bx.psu.edu
- name: split_file_to_collection
owner: bgruening
revisions:
- 6cbe2f30c2d7
tool_panel_section_label: Collection Operations
tool_shed_url: toolshed.g2.bx.psu.edu
- name: collection_element_identifiers
owner: iuc
revisions:
- d3c07d270a50
tool_panel_section_label: Collection Operations
tool_shed_url: toolshed.g2.bx.psu.edu
- name: collection_column_join
owner: iuc
revisions:
- 071084070619
tool_panel_section_label: Collection Operations
tool_shed_url: toolshed.g2.bx.psu.edu
- name: filter_tabular
owner: iuc
revisions:
- 6544e4b87a4f
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: query_tabular
owner: iuc
revisions:
- 83069b38aa85
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: column_maker
owner: devteam
revisions:
- 02026300aa45
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: sqlite_to_tabular
owner: iuc
revisions:
- bce29ec10b78
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: annotatemyids
owner: iuc
revisions:
- 44018dd6b447
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: concatenate_multiple_datasets
owner: mvdbeek
revisions:
- 201c568972c3
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: regex_find_replace
owner: galaxyp
revisions:
- ae8c4b2488e7
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: table_compute
owner: iuc
revisions:
- 60ff16842fcd
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: split_file_on_column
owner: bgruening
revisions:
- 37a53100b67e
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: add_input_name_as_column
owner: mvdbeek
revisions:
- 3284b72eef56
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: text_processing
owner: bgruening
revisions:
- ddf54b12c295
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: reshape2_melt
owner: iuc
revisions:
- 317ed0ee8bf2
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: reshape2_cast
owner: iuc
revisions:
- d3b66a3a08ca
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: jq
owner: iuc
revisions:
- 5ff75eb1a893
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: gff3_rebase
owner: iuc
revisions:
- 238981ed43b7
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: column_remove_by_header
owner: iuc
revisions:
- 372967836e98
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: column_order_header_sort
owner: iuc
revisions:
- 6ae9724caf4d
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: replace_column_by_key_value_file
owner: bgruening
revisions:
- d533e4b75800
tool_panel_section_label: Text Manipulation
tool_shed_url: toolshed.g2.bx.psu.edu
- name: datamash_reverse
owner: iuc
revisions:
- 0f1724dd59d2
tool_panel_section_label: Datamash
tool_shed_url: toolshed.g2.bx.psu.edu
- name: datamash_transpose
owner: iuc
revisions:
- 22c2a1ac7ae3
tool_panel_section_label: Datamash
tool_shed_url: toolshed.g2.bx.psu.edu
- name: datamash_ops
owner: iuc
revisions:
- 562f3c677828
tool_panel_section_label: Datamash
tool_shed_url: toolshed.g2.bx.psu.edu
- name: cutadapt
owner: lparsons
revisions:
- 093678460093
tool_panel_section_label: FASTA/FASTQ
tool_shed_url: toolshed.g2.bx.psu.edu
- name: fastq_filter
owner: devteam
revisions:
- 81a9090d6df3
tool_panel_section_label: FASTA/FASTQ
tool_shed_url: toolshed.g2.bx.psu.edu
- name: fastq_groomer
owner: devteam
revisions:
- 47e5dbc3e790
tool_panel_section_label: FASTA/FASTQ
tool_shed_url: toolshed.g2.bx.psu.edu
- name: fastq_manipulation
owner: devteam
revisions:
- 5b87038565bb
tool_panel_section_label: FASTA/FASTQ
tool_shed_url: toolshed.g2.bx.psu.edu
- name: fasta_compute_length
owner: devteam
revisions:
- 7d37cfda8e00
tool_panel_section_label: FASTA/FASTQ
tool_shed_url: toolshed.g2.bx.psu.edu
- name: fastq_paired_end_deinterlacer
owner: devteam
revisions:
- f3936d0632cb
tool_panel_section_label: FASTA/FASTQ
tool_shed_url: toolshed.g2.bx.psu.edu
- name: fastq_paired_end_interlacer
owner: devteam
revisions:
- 2ccb8dcabddc
tool_panel_section_label: FASTA/FASTQ
tool_shed_url: toolshed.g2.bx.psu.edu
- name: flash
owner: iuc
revisions:
- a27654fc4270
tool_panel_section_label: FASTA/FASTQ
tool_shed_url: toolshed.g2.bx.psu.edu
- name: multiqc
owner: iuc
revisions:
- 75c93c70d094
tool_panel_section_label: FASTQ Quality Control
tool_shed_url: toolshed.g2.bx.psu.edu
- name: fastp
owner: iuc
revisions:
- dbf9c561ef29
tool_panel_section_label: FASTQ Quality Control
tool_shed_url: toolshed.g2.bx.psu.edu
- name: fastqc
owner: devteam
revisions:
- e7b2202befea
tool_panel_section_label: FASTQ Quality Control
tool_shed_url: toolshed.g2.bx.psu.edu
- name: trimmomatic
owner: pjbriggs
revisions:
- d94aff5ee623
tool_panel_section_label: FASTQ Quality Control
tool_shed_url: toolshed.g2.bx.psu.edu
- name: trim_galore
owner: bgruening
revisions:
- 084bbd8ba7b8
tool_panel_section_label: FASTA/FASTQ
tool_shed_url: toolshed.g2.bx.psu.edu
- name: pileup_interval
owner: devteam
revisions:
- 9c1c0b947e46
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: qualimap_bamqc
owner: iuc
revisions:
- 19ece8afbaab
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_view
owner: iuc
revisions:
- b72793637686
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_reheader
owner: devteam
revisions:
- 30388d878f81
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: sam_pileup
owner: devteam
revisions:
- a3b4ad6858ff
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bamtools
owner: devteam
revisions:
- 4d343c1f606b
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bamtools_split
owner: devteam
revisions:
- 9676127a1ed2
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: sam2interval
owner: devteam
revisions:
- 75557c0908a9
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: qualimap_multi_bamqc
owner: iuc
revisions:
- e38af83df163
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_phase
owner: devteam
revisions:
- b5c3b1856370
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_merge
owner: iuc
revisions:
- 740ce0a18f0d
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_markdup
owner: iuc
revisions:
- 83b8e36e9cbe
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_fixmate
owner: iuc
revisions:
- bc0cc7bfbfe9
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_fastx
owner: iuc
revisions:
- a8d69aee190e
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_depth
owner: iuc
revisions:
- 44de678a44c4
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_stats
owner: devteam
revisions:
- 145f6d74ff5e
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_split
owner: devteam
revisions:
- 135c85f4cfaf
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_bedcov
owner: devteam
revisions:
- 9149ad20699a
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_calmd
owner: devteam
revisions:
- 06dc50b7b711
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_idxstats
owner: devteam
revisions:
- 7a6034296ae9
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtool_filter2
owner: devteam
revisions:
- 649a225999a5
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_flagstat
owner: devteam
revisions:
- 22970df7a40e
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_sort
owner: devteam
revisions:
- e613c1ad4c4c
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_mpileup
owner: devteam
revisions:
- fa7ad9b89f4a
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bam_to_sam
owner: devteam
revisions:
- 88eedb4abea0
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bamtools_filter
owner: devteam
revisions:
- cb20f99fd45b
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: sam_to_bam
owner: devteam
revisions:
- cf1ffd88f895
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_slice_bam
owner: devteam
revisions:
- a4a10c7924d1
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: samtools_rmdup
owner: devteam
revisions:
- 586f9e1cdb2b
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: filter_on_md
owner: boris
revisions:
- ac70bfaf1224
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: sam_merge
owner: devteam
revisions:
- 1977f1637890
tool_panel_section_label: SAM/BAM
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bedtools
owner: iuc
revisions:
- ce3c7f062223
tool_panel_section_label: BED
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_consensus
owner: iuc
revisions:
- d6dc477167f8
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_gtcheck
owner: iuc
revisions:
- 672b6c02fbc7
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_plugin_fixploidy
owner: iuc
revisions:
- '365325116147'
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_convert_to_vcf
owner: iuc
revisions:
- fec517907949
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_norm
owner: iuc
revisions:
- c077f71d351f
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_query_list_samples
owner: iuc
revisions:
- ed4ea9de1791
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_plugin_missing2ref
owner: iuc
revisions:
- dfef7a353ed0
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_cnv
owner: iuc
revisions:
- 01d6b7d6365e
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_plugin_setgt
owner: iuc
revisions:
- 8abfcd1a6949
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_plugin_counts
owner: iuc
revisions:
- 4813f99d81b7
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_mpileup
owner: iuc
revisions:
- 0dbff46d5a1b
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_plugin_mendelian
owner: iuc
revisions:
- bf235558f2cf
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_concat
owner: iuc
revisions:
- d40d4bf05718
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_convert_from_vcf
owner: iuc
revisions:
- b8e9da766b0f
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_plugin_impute_info
owner: iuc
revisions:
- 776ad0b21536
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_reheader
owner: iuc
revisions:
- 9ef52d95114b
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_stats
owner: iuc
revisions:
- b17394940c7a
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_plugin_fill_an_ac
owner: iuc
revisions:
- 582f8b13873d
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_plugin_fill_tags
owner: iuc
revisions:
- bf7d6acd9884
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_isec
owner: iuc
revisions:
- 02f349bdbf96
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_merge
owner: iuc
revisions:
- e03f2f3ac3a9
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_roh
owner: iuc
revisions:
- b76adb2f1c51
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_call
owner: iuc
revisions:
- 072f606e2e69
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_view
owner: iuc
revisions:
- 23680a42e149
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_filter
owner: iuc
revisions:
- 6ca7c55a27e8
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_csq
owner: iuc
revisions:
- fdd127bd4a32
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_annotate
owner: iuc
revisions:
- 403553ae19f6
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_plugin_dosage
owner: iuc
revisions:
- 5c232a738c74
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_query
owner: iuc
revisions:
- c9c5718edc19
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: bcftools_plugin_tag2tag
owner: iuc
revisions:
- bdfdf5f6e950
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcf2tsv
owner: devteam
revisions:
- 285060661b45
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcfaddinfo
owner: devteam
revisions:
- 6ea73d6151ec
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcfallelicprimitives
owner: devteam
revisions:
- 57a16b310fe8
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcfannotate
owner: devteam
revisions:
- 01e0321aca98
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcfannotategenotypes
owner: devteam
revisions:
- 84959112d9a6
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcfbedintersect
owner: devteam
revisions:
- aea8e90ad788
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcfbreakcreatemulti
owner: devteam
revisions:
- 9fd5d91eb91b
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcfcheck
owner: devteam
revisions:
- 2968c6916579
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcfcombine
owner: devteam
revisions:
- 1f0ba67cc85a
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcfcommonsamples
owner: devteam
revisions:
- f1852ecef841
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcffixup
owner: devteam
revisions:
- 11f62f071125
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcfflatten
owner: devteam
revisions:
- f285aa6bdcfb
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcfgeno2haplo
owner: devteam
revisions:
- a3dea556218d
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcfgenotypes
owner: devteam
revisions:
- a60ae8af21a1
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcfhethom
owner: devteam
revisions:
- 8254e0fe7358
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcfleftalign
owner: devteam
revisions:
- 29f9b782727e
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
- name: vcfprimers
owner: devteam
revisions:
- 17096387c0e6
tool_panel_section_label: VCF/BCF
tool_shed_url: toolshed.g2.bx.psu.edu
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