GTN Proteogemics2 Database Search
Version 1

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Workflow Type: Galaxy

Galaxy workflow

SEEK ID: https://dev.workflowhub.eu/workflows/1036?version=1

Inputs

ID Name Description Type
MGF Collection #main/MGF Collection n/a
  • array containing
    • File
Reference Protein Accessions #main/Reference Protein Accessions n/a
  • File
Uniprot_cRAP_SAV_indel_translatedbed.FASTA #main/Uniprot_cRAP_SAV_indel_translatedbed.FASTA n/a
  • File

Steps

ID Name Description
3 Search GUI toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/search_gui/3.3.10.1
4 Peptide Shaker toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/peptide_shaker/1.16.36.3
5 mz to sqlite toolshed.g2.bx.psu.edu/repos/galaxyp/mz_to_sqlite/mz_to_sqlite/2.0.4+galaxy1
6 Removing reference proteins toolshed.g2.bx.psu.edu/repos/iuc/query_tabular/query_tabular/3.0.0
7 Selecting sequence with length >6 and <30 toolshed.g2.bx.psu.edu/repos/iuc/query_tabular/query_tabular/3.0.0
8 Peptides for BlastP analysis toolshed.g2.bx.psu.edu/repos/devteam/tabular_to_fasta/tab2fasta/1.1.1

Outputs

ID Name Description Type
Peptide Shaker on input dataset(s): mzidentML file #main/Peptide Shaker on input dataset(s): mzidentML file n/a
  • File
Peptides_for_BlastP_analysis #main/Peptides_for_BlastP_analysis n/a
  • File
Removing reference proteins #main/Removing reference proteins n/a
  • File
Search GUI on input dataset(s) #main/Search GUI on input dataset(s) n/a
  • File
Selecting sequence with length >6 and <30 #main/Selecting sequence with length >6 and <30 n/a
  • File
_anonymous_output_4 #main/_anonymous_output_4 n/a
  • File
_anonymous_output_5 #main/_anonymous_output_5 n/a
  • File
_anonymous_output_6 #main/_anonymous_output_6 n/a
  • File
_anonymous_output_7 #main/_anonymous_output_7 n/a
  • File
mz to sqlite on input dataset(s) #main/mz to sqlite on input dataset(s) n/a
  • File

Version History

8 (earliest) Created 22nd Apr 2024 at 11:23 by Helena Rasche

Added/updated 3 files


Open master 0325773
help Creators and Submitter
Creators
Not specified
Submitter
Tool
mzToSQLite
License
Creative Commons Attribution 4.0 International
Activity

Views: 20

Created: 22nd Apr 2024 at 11:23

Last updated: 22nd Apr 2024 at 11:23

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Total size: 27.8 KB
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