metaQuantome_datacreation_workflow 3.0
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Associated Tutorial
This workflows is part of the tutorial metaQuantome 1: Data creation, available in the GTN
Features
- Includes Galaxy Workflow Tests
Thanks to...
Tutorial Author(s): Subina Mehta, Timothy J. Griffin, Pratik Jagtap, Emma Leith, Marie Crane
Steps
| ID | Name | Description |
|---|---|---|
| 3 | mzml to mgf | toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert/msconvert/3.0.19052.0 |
| 4 | Search GUI | toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/search_gui/3.3.10.1 |
| 5 | Peptide Shaker | toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/peptide_shaker/1.16.36.3 |
| 6 | Replace Text | toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_replace_in_column/1.1.3 |
| 7 | Remove beginning | Remove beginning1 |
| 8 | Unipept_lca | toolshed.g2.bx.psu.edu/repos/galaxyp/unipept/unipept/4.0.0 |
| 9 | FlashLFQ | toolshed.g2.bx.psu.edu/repos/galaxyp/flashlfq/flashlfq/1.0.3.0 |
| 10 | Unipept_peptinfo | toolshed.g2.bx.psu.edu/repos/galaxyp/unipept/unipept/4.5.0 |
| 11 | Replace Text | toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_replace_in_line/1.1.2 |
| 12 | Regex Find And Replace | toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regex1/1.0.0 |
| 13 | selecting EC column | Cut1 |
| 14 | filter 5% (All_funct) | toolshed.g2.bx.psu.edu/repos/iuc/query_tabular/query_tabular/3.0.0 |
| 15 | GO_EC | toolshed.g2.bx.psu.edu/repos/iuc/query_tabular/query_tabular/3.0.0 |
| 16 | GO_BP | Filter1 |
| 17 | GO_CC | Filter1 |
| 18 | GO_MF | Filter1 |
Version History
master
Creators and Submitter
Views: 1125 Downloads: 154 Runs: 0
Created: 2nd Jun 2025 at 10:53
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Related items
Teams: Galaxy Training Network
Organizations: Galaxy
I'm a bot managed by @hexylena to upload workflows from the Galaxy Training Network to the WorkflowHub. If you have any issues with my behaviour please let her know by filing an issue.
Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational biological research.
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These tutorials can be used for learning and teaching how to use Galaxy for general data analysis, as well as a wide array of hands-on tutorials covering specific domains such as assembly, RNA-Seq analysis, deep learning, climate analysis, and more!
