Galaxy |

annotateMyIDs tool metadata

Miscellaneous

Name: annotateMyIDs

Description: annotate a generic set of identifiers

Id: annotatemyids

Guid: toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotatemyids/3.18.0+galaxy0

Version: 3.18.0+galaxy0

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: ")", org.Bt.eg.db version" $(R --vanilla --slave -e "library(org.Bt.eg.db); cat(sessionInfo()\$otherPkgs\$org.Bt.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/3.18.0+galaxy0 (this tool)

toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotatemyids/3.17.0+galaxy1

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

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

3.18.0

package

bioconductor-org.mm.eg.db

3.18.0

package

bioconductor-org.dm.eg.db

3.18.0

package

bioconductor-org.dr.eg.db

3.18.0

package

bioconductor-org.rn.eg.db

3.18.0

package

bioconductor-org.at.tair.db

3.18.0

package

bioconductor-org.gg.eg.db

3.18.0

package

bioconductor-org.bt.eg.db

3.18.0

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

Test-7

id_file: genelist.txt
organism: Bt
id_type: SYMBOL
output_cols: ENSEMBL

name: value

genelist.txt
value