Created
March 30, 2021 21:44
-
-
Save ksuderman/58472742c6534381b2f901a13534b2ab to your computer and use it in GitHub Desktop.
Latest Tools
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
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 | |
- name: vcfrandomsample | |
owner: devteam | |
revisions: | |
- 6257ee3b50d3 | |
tool_panel_section_label: VCF/BCF | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: vcfsort | |
owner: devteam | |
revisions: | |
- f0580efedada | |
tool_panel_section_label: VCF/BCF | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: vcfvcfintersect | |
owner: devteam | |
revisions: | |
- 166c4f50525f | |
tool_panel_section_label: VCF/BCF | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: vcfselectsamples | |
owner: devteam | |
revisions: | |
- 2ba3b87f904f | |
tool_panel_section_label: VCF/BCF | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: vcfdistance | |
owner: devteam | |
revisions: | |
- 5822b40f3037 | |
tool_panel_section_label: VCF/BCF | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: vcffilter | |
owner: devteam | |
revisions: | |
- fa24bf0598f4 | |
tool_panel_section_label: VCF/BCF | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: vcfdistance | |
owner: iuc | |
revisions: | |
- c506b8275b1a | |
tool_panel_section_label: VCF/BCF | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: vcftools_annotate | |
owner: devteam | |
revisions: | |
- 57a6550df582 | |
tool_panel_section_label: VCF/BCF | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: vcftools_slice | |
owner: devteam | |
revisions: | |
- 1363e5d4a8b8 | |
tool_panel_section_label: VCF/BCF | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: medaka_variant | |
owner: iuc | |
revisions: | |
- 43815fa60f3a | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: flye | |
owner: bgruening | |
revisions: | |
- 3ee0ef312022 | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: medaka_consensus_pipeline | |
owner: iuc | |
revisions: | |
- a7228a7ea146 | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: medaka_variant_pipeline | |
owner: iuc | |
revisions: | |
- 336b3def9b2b | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: medaka_consensus | |
owner: iuc | |
revisions: | |
- db25ec99c3ea | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: nanoplot | |
owner: iuc | |
revisions: | |
- edbb6c5028f5 | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: poretools_events | |
owner: iuc | |
revisions: | |
- 28d7819c312f | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: poretools_hist | |
owner: iuc | |
revisions: | |
- 5a82eb9e1b89 | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: poretools_occupancy | |
owner: iuc | |
revisions: | |
- 338d15b8d6fb | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: poretools_qualpos | |
owner: iuc | |
revisions: | |
- 4fe6b96aff72 | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: poretools_squiggle | |
owner: iuc | |
revisions: | |
- 34553d0caa5e | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: poretools_yield_plot | |
owner: iuc | |
revisions: | |
- ca22d8497db5 | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: porechop | |
owner: iuc | |
revisions: | |
- 93d623d9979c | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: poretools_winner | |
owner: iuc | |
revisions: | |
- 79c1ac92f31b | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: poretools_times | |
owner: iuc | |
revisions: | |
- 960be5e0b47e | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: poretools_tabular | |
owner: iuc | |
revisions: | |
- 2cb2feb94f0e | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: poretools_stats | |
owner: iuc | |
revisions: | |
- 4b17acf9b6ab | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: poretools_qualdist | |
owner: iuc | |
revisions: | |
- ae9060e764b5 | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: poretools_nucdist | |
owner: iuc | |
revisions: | |
- a57b6350fd5d | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: poretools_extract | |
owner: iuc | |
revisions: | |
- 7e4f1ed70187 | |
tool_panel_section_label: Nanopore | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: picard | |
owner: devteam | |
revisions: | |
- a1f0b3f4b781 | |
tool_panel_section_label: Picard | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deeptools_compute_matrix | |
owner: bgruening | |
revisions: | |
- 514fa53b5efb | |
tool_panel_section_label: deepTools | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deeptools_plot_heatmap | |
owner: bgruening | |
revisions: | |
- a4dfb122e52b | |
tool_panel_section_label: deepTools | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deeptools_bam_compare | |
owner: bgruening | |
revisions: | |
- e821645ef8fc | |
tool_panel_section_label: deepTools | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deeptools_bam_pe_fragmentsize | |
owner: bgruening | |
revisions: | |
- 62eb6d63f582 | |
tool_panel_section_label: deepTools | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deeptools_bigwig_compare | |
owner: bgruening | |
revisions: | |
- 26e7304d6737 | |
tool_panel_section_label: deepTools | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deeptools_compute_gc_bias | |
owner: bgruening | |
revisions: | |
- 2bc10a9ca58b | |
tool_panel_section_label: deepTools | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deeptools_correct_gc_bias | |
owner: bgruening | |
revisions: | |
- 2c37ce318bc3 | |
tool_panel_section_label: deepTools | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deeptools_multi_bam_summary | |
owner: bgruening | |
revisions: | |
- 78f405266706 | |
tool_panel_section_label: deepTools | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deeptools_multi_bigwig_summary | |
owner: bgruening | |
revisions: | |
- 3c9f0c486cca | |
tool_panel_section_label: deepTools | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deeptools_plot_correlation | |
owner: bgruening | |
revisions: | |
- 32e451def88c | |
tool_panel_section_label: deepTools | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deeptools_plot_coverage | |
owner: bgruening | |
revisions: | |
- 56bce3c82278 | |
tool_panel_section_label: deepTools | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deeptools_plot_enrichment | |
owner: bgruening | |
revisions: | |
- e65d16fb2724 | |
tool_panel_section_label: deepTools | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deeptools_plot_fingerprint | |
owner: bgruening | |
revisions: | |
- 2da482e408b8 | |
tool_panel_section_label: deepTools | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deeptools_plot_pca | |
owner: bgruening | |
revisions: | |
- 69264da0ce77 | |
tool_panel_section_label: deepTools | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deeptools_bam_coverage | |
owner: bgruening | |
revisions: | |
- bb1e4f63e0e6 | |
tool_panel_section_label: deepTools | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deeptools_plot_profile | |
owner: bgruening | |
revisions: | |
- c361b12d207a | |
tool_panel_section_label: deepTools | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: rseqc | |
owner: nilesh | |
revisions: | |
- 1a052c827e88 | |
tool_panel_section_label: RSeQC | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: minimap2 | |
owner: iuc | |
revisions: | |
- f54f5baedfdd | |
tool_panel_section_label: Mapping | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: bowtie2 | |
owner: devteam | |
revisions: | |
- 09b2cdb7ace5 | |
tool_panel_section_label: Mapping | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: bwa | |
owner: devteam | |
revisions: | |
- 3fe632431b68 | |
tool_panel_section_label: Mapping | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: bwameth | |
owner: iuc | |
revisions: | |
- 29bdbc353f20 | |
tool_panel_section_label: Mapping | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: lastz | |
owner: devteam | |
revisions: | |
- e7f19d6a9af8 | |
tool_panel_section_label: Mapping | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: unicycler | |
owner: iuc | |
revisions: | |
- 9e3e80cc4ad4 | |
tool_panel_section_label: Assembly | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: spades | |
owner: nml | |
revisions: | |
- b8c00ce5dfa0 | |
tool_panel_section_label: Assembly | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: miniasm | |
owner: iuc | |
revisions: | |
- 8dee0218ac7d | |
tool_panel_section_label: Assembly | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: racon | |
owner: bgruening | |
revisions: | |
- a199cd7ac344 | |
tool_panel_section_label: Assembly | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: lofreq_call | |
owner: iuc | |
revisions: | |
- e1461b5c52a0 | |
tool_panel_section_label: Variant Calling | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: lofreq_viterbi | |
owner: iuc | |
revisions: | |
- aa35ee7f3ab2 | |
tool_panel_section_label: Variant Calling | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: lofreq_indelqual | |
owner: iuc | |
revisions: | |
- 426d707dfc47 | |
tool_panel_section_label: Variant Calling | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: lofreq_filter | |
owner: iuc | |
revisions: | |
- 7dfca164d2e3 | |
tool_panel_section_label: Variant Calling | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: lofreq_alnqual | |
owner: iuc | |
revisions: | |
- 09d6e4693887 | |
tool_panel_section_label: Variant Calling | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: freebayes | |
owner: devteam | |
revisions: | |
- ef2c525bd8cd | |
tool_panel_section_label: Variant Calling | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: snpsift_genesets | |
owner: iuc | |
revisions: | |
- d12a810c837e | |
tool_panel_section_label: Variant Calling | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: snpsift_dbnsfp | |
owner: iuc | |
revisions: | |
- 4e21e4f2bc48 | |
tool_panel_section_label: Variant Calling | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: snpeff | |
owner: iuc | |
revisions: | |
- 74aebe30fb52 | |
tool_panel_section_label: Variant Calling | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: ivar_trim | |
owner: iuc | |
revisions: | |
- db536ad45f28 | |
tool_panel_section_label: Virology | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: ivar_removereads | |
owner: iuc | |
revisions: | |
- ee2beb764a7b | |
tool_panel_section_label: Virology | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: snpeff_sars_cov_2 | |
owner: iuc | |
revisions: | |
- 2a3a00c1fa0a | |
tool_panel_section_label: Virology | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: ivar_consensus | |
owner: iuc | |
revisions: | |
- 78bbd17d0703 | |
tool_panel_section_label: Virology | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: ivar_filtervariants | |
owner: iuc | |
revisions: | |
- 7fe36019c073 | |
tool_panel_section_label: Virology | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: ivar_getmasked | |
owner: iuc | |
revisions: | |
- 2cf4a1cafc16 | |
tool_panel_section_label: Virology | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: ivar_variants | |
owner: iuc | |
revisions: | |
- f95f403841ad | |
tool_panel_section_label: Virology | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: snpsift | |
owner: iuc | |
revisions: | |
- 2e497a770bca | |
tool_panel_section_label: Variant Calling | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: salmon | |
owner: bgruening | |
revisions: | |
- cc05793bb896 | |
tool_panel_section_label: RNA-seq | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: kallisto_pseudo | |
owner: iuc | |
revisions: | |
- 5ae5c312d718 | |
tool_panel_section_label: RNA-seq | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: kallisto_quant | |
owner: iuc | |
revisions: | |
- 60f888039fb2 | |
tool_panel_section_label: RNA-seq | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: deseq2 | |
owner: iuc | |
revisions: | |
- 6a3a025714d3 | |
tool_panel_section_label: RNA-seq | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: limma_voom | |
owner: iuc | |
revisions: | |
- 0921444c832d | |
tool_panel_section_label: RNA-seq | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: edger | |
owner: iuc | |
revisions: | |
- 334ce9b1bac5 | |
tool_panel_section_label: RNA-seq | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: sailfish | |
owner: bgruening | |
revisions: | |
- a8f343909c17 | |
tool_panel_section_label: RNA-seq | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: hisat2 | |
owner: iuc | |
revisions: | |
- 26371a1df031 | |
tool_panel_section_label: RNA-seq | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: stringtie | |
owner: iuc | |
revisions: | |
- 1ebd14235b92 | |
tool_panel_section_label: RNA-seq | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: pygenometracks | |
owner: iuc | |
revisions: | |
- 2824d77cd8f8 | |
tool_panel_section_label: Graph/Display Data | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: circos | |
owner: iuc | |
revisions: | |
- df7356989ac1 | |
tool_panel_section_label: Graph/Display Data | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: jbrowse | |
owner: iuc | |
revisions: | |
- 4542035c1075 | |
tool_panel_section_label: Graph/Display Data | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: volcanoplot | |
owner: iuc | |
revisions: | |
- 73b8cb5bddcd | |
tool_panel_section_label: Graph/Display Data | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: mummer_nucmer | |
owner: iuc | |
revisions: | |
- 636b049e6141 | |
tool_panel_section_label: Multiple Alignments | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: mummer_mummerplot | |
owner: iuc | |
revisions: | |
- ebe3b0f84de9 | |
tool_panel_section_label: Multiple Alignments | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: mummer_show_coords | |
owner: iuc | |
revisions: | |
- 959c1f8dae95 | |
tool_panel_section_label: Multiple Alignments | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: mummer_dnadiff | |
owner: iuc | |
revisions: | |
- 60698466facd | |
tool_panel_section_label: Multiple Alignments | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: mummer_mummer | |
owner: iuc | |
revisions: | |
- 48823c9635a4 | |
tool_panel_section_label: Multiple Alignments | |
tool_shed_url: toolshed.g2.bx.psu.edu | |
- name: mummer_delta_filter | |
owner: iuc | |
revisions: | |
- b3acbb3a6af0 | |
tool_panel_section_label: Multiple Alignments | |
tool_shed_url: toolshed.g2.bx.psu.edu |
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment