Galaxy |

idpAssemble tool metadata

Miscellaneous

Name: idpAssemble

Description: Merge IDPicker databases from single files into a merged database, and filters the result at PSM/spectrum/peptide/protein/gene levels.

Id: idpassemble

Guid: toolshed.g2.bx.psu.edu/repos/galaxyp/idpassemble/idpassemble/3.0.20175.0

Version: 3.0.20175.0

Version command string: None

Display in tool panel: True

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

toolshed.g2.bx.psu.edu/repos/galaxyp/idpassemble/idpassemble/3.0.21142.0

toolshed.g2.bx.psu.edu/repos/galaxyp/idpassemble/idpassemble/3.0.20175.0 (this tool)

toolshed.g2.bx.psu.edu/repos/galaxyp/idpassemble/idpassemble/3.0.20163.0

toolshed.g2.bx.psu.edu/repos/galaxyp/idpassemble/idpassemble/3.0.11579.0

toolshed.g2.bx.psu.edu/repos/galaxyp/idpassemble/idpassemble/3.0.11392.1

toolshed.g2.bx.psu.edu/repos/galaxyp/idpassemble/idpassemble/3.0.11392.0

toolshed.g2.bx.psu.edu/repos/galaxyp/idpassemble/idpassemble/3.0.10246.0

idpassemble

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

Requirements:

name

version

type

bumbershoot

3_0_20175_cbf82d0

package

Functional tests

name

inputs

outputs

required files

Test-1

input: 201208-378803-mm.idpDB
MaxFDRScore: 0.05
MinSpectraPerDistinctPeptide: 1
MaxProteinGroupsPerPeptide: 10
MinSpectraPerDistinctMatch: 1

attributes: name

201208-378803-mm.idpDB
name

Test-2

input: 201208-378803-msgf.idpDB
MaxFDRScore: 0.05
MinSpectraPerDistinctPeptide: 1
MaxProteinGroupsPerPeptide: 10
MinSpectraPerDistinctMatch: 1

attributes: name

201208-378803-msgf.idpDB
name

Test-3

MaxFDRScore: 0.05
AssignSourceHierarchyCondition|AssignSourceHierarchy: assembly.tsv
MinSpectraPerDistinctMatch: 1
MinSpectraPerDistinctPeptide: 1
AssignSourceHierarchyCondition|HasAssignSourceHierarchy: True
input: 201208-378803-cm.idpDB
MaxProteinGroupsPerPeptide: 10

attributes: name

201208-378803-cm.idpDB
assembly.tsv
name

Test-4

input: ['201208-378803-mm.idpDB', '201208-378803-msgf.idpDB', '201208-378803-cm.idpDB']
MaxFDRScore: 0.05
MinSpectraPerDistinctPeptide: 1
MaxProteinGroupsPerPeptide: 10
MinSpectraPerDistinctMatch: 1

attributes: name

201208-378803-mm.idpDB
201208-378803-msgf.idpDB
201208-378803-cm.idpDB
name

Test-5

input: 201208-378803-embeddedGenesAndQuantitation.idpDB
IsobaricSampleMappingCondition|HasIsobaricSampleMapping: True
IsobaricSampleMappingCondition|IsobaricSampleMapping: mapping.tsv
AssignSourceHierarchyCondition|AssignSourceHierarchy: assembly.tsv
AssignSourceHierarchyCondition|HasAssignSourceHierarchy: True

attributes: name

201208-378803-embeddedGenesAndQuantitation.idpDB
assembly.tsv
mapping.tsv
name