Revision: 13:133f36c29579

Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids

Miscellaneous

Name: annotateMyIDs

Description: annotate a generic set of identifiers

Id: annotatemyids

Guid: toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotatemyids/3.16.0+galaxy1

Version: 3.16.0+galaxy1

Version command string: echo $(R --version | grep version | grep -v GNU)", org.Hs.eg.db version" $(R --vanilla --slave -e "library(org.Hs.eg.db); cat(sessionInfo()\$otherPkgs\$org.Hs.eg.db\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", org.Dr.eg.db version" $(R --vanilla --slave -e "library(org.Dr.eg.db); cat(sessionInfo()\$otherPkgs\$org.Dr.eg.db\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", org.Dm.eg.db version" $(R --vanilla --slave -e "library(org.Dm.eg.db); cat(sessionInfo()\$otherPkgs\$org.Dm.eg.db\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", org.Mm.eg.db version" $(R --vanilla --slave -e "library(org.Mm.eg.db); cat(sessionInfo()\$otherPkgs\$org.Mm.eg.db\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", org.Rn.eg.db version" $(R --vanilla --slave -e "library(org.Rn.eg.db); cat(sessionInfo()\$otherPkgs\$org.Rn.eg.db\$Version)" 2> /dev/null | grep -v -i "WARNING: ")

Display in tool panel: True

Version lineage of this tool (guids ordered most recent to oldest)

toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotatemyids/3.17.0+galaxy0

toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotatemyids/3.16.0+galaxy1 (this tool)

toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotatemyids/3.14.0+galaxy1

toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotatemyids/3.14.0+galaxy0

toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotatemyids/3.12.0+galaxy1

toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotatemyids/3.12.0

toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotatemyids/3.7.0+galaxy2

toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotatemyids/3.7.0+galaxy1

toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotatemyids/3.7.0

toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotatemyids/3.6.0

toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotatemyids/3.5.0.1

toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotatemyids/3.5.0.0

annotatemyids

Requirements (dependencies defined in the <requirements> tag set)

Requirements:

name	version	type
bioconductor-org.hs.eg.db	3.16.0	package
bioconductor-org.mm.eg.db	3.16.0	package
bioconductor-org.dm.eg.db	3.16.0	package
bioconductor-org.dr.eg.db	3.16.0	package
bioconductor-org.rn.eg.db	3.16.0	package
bioconductor-org.at.tair.db	3.16.0	package
bioconductor-org.gg.eg.db	3.16.0	package

Functional tests

name	inputs	outputs	required files
Test-1	id_file: genelist.txt organism: Hs id_type: SYMBOL	name: value	genelist.txt value
Test-2	id_file: ensembl_ids.tab organism: Hs id_type: ENSEMBL rscriptOpt: True	name: value name: value	ensembl_ids.tab value
Test-3	id_file: ensembl_ids.tab organism: Hs id_type: ENSEMBL output_cols: ['ENSEMBL', 'GO', 'ONTOLOGY', 'EVIDENCE']	name: value	ensembl_ids.tab value
Test-4	id_file: ensembl_ids.tab organism: Hs id_type: ENSEMBL output_cols: ['ENSEMBL', 'GO', 'ONTOLOGY', 'EVIDENCE'] remove_dups: True	name: value	ensembl_ids.tab value
Test-5	id_file: genelist_arabidopsis.txt organism: At id_type: SYMBOL output_cols: ['GO', 'ENTREZID']	name: value	genelist_arabidopsis.txt value
Test-6	id_file: genelist_gallus.txt organism: Gg id_type: SYMBOL output_cols: ['GO', 'ENTREZID']	name: value	genelist_gallus.txt value