openms-metaprosip/main
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Workflow Type: Galaxy
Frozen
Automated inference of stable isotope incorporation rates in proteins for functional metaproteomics
Inputs
| ID | Name | Description | Type |
|---|---|---|---|
| Centroided LC-MS datasets | Centroided LC-MS datasets | mgf, ms2, mzml or mzxml datasets |
|
| Fasta Database | Fasta Database | A protein sequence database in FASTA format |
|
| Fixed modifications | Fixed modifications | used for the MSGF+ search |
|
| Labeled element | Labeled element | Used for MetaProSIP (single letter code) |
|
| Precursor monoisotopic mass tolerance (ppm) | Precursor monoisotopic mass tolerance (ppm) | passed to - MSGF+ -precursor_mass_tolerance - MetaProSIP -mz_tolerance_ppm |
|
| Variable modifications | Variable modifications | used for the MSGF+ search |
|
Steps
| ID | Name | Description |
|---|---|---|
| 6 | Sort collection | __SORTLIST__ |
| 7 | DecoyDatabase | toolshed.g2.bx.psu.edu/repos/galaxyp/openms_decoydatabase/DecoyDatabase/2.8+galaxy0 |
| 8 | FeatureFinderMultiplex | toolshed.g2.bx.psu.edu/repos/galaxyp/openms_featurefindermultiplex/FeatureFinderMultiplex/2.8+galaxy0 |
| 9 | MSGFPlusAdapter | toolshed.g2.bx.psu.edu/repos/galaxyp/openms_msgfplusadapter/MSGFPlusAdapter/2.8+galaxy0 |
| 10 | PeptideIndexer | toolshed.g2.bx.psu.edu/repos/galaxyp/openms_peptideindexer/PeptideIndexer/2.8+galaxy0 |
| 11 | FalseDiscoveryRate | toolshed.g2.bx.psu.edu/repos/galaxyp/openms_falsediscoveryrate/FalseDiscoveryRate/2.8+galaxy0 |
| 12 | IDMapper | toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idmapper/IDMapper/2.8+galaxy0 |
| 13 | MetaProSIP | toolshed.g2.bx.psu.edu/repos/galaxyp/openms_metaprosip/MetaProSIP/2.8+galaxy0 |
Outputs
| ID | Name | Description | Type |
|---|---|---|---|
| Feature fitting result | Feature fitting result | n/a |
|
| Peptide centric result | Peptide centric result | n/a |
|
Version History
v0.1 (earliest) Created 20th Oct 2023 at 03:01 by WorkflowHub Bot
Updated to v0.1
Frozen
v0.1798090c
Creators and Submitter
License
Activity
Views: 6074 Downloads: 3600 Runs: 1
Created: 20th Oct 2023 at 03:01
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