WF1_Database_Generation_Workflow
1.0

Workflow Type: Galaxy

Generating a large database and then reducing it to a compact database using Metanovo

Associated Tutorial

This workflows is part of the tutorial Clinical Metaproteomics 1: Database-Generation, available in the GTN

Thanks to...

Workflow Author(s): Subina Mehta

Tutorial Author(s): Subina Mehta, Katherine Do, Dechen Bhuming

Tutorial Contributor(s): Pratik Jagtap, Timothy J. Griffin, Bérénice Batut, Helena Rasche, Saskia Hiltemann, Björn Grüning, Subina Mehta

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Inputs

ID Name Description Type
Contaminants (cRAP) Protein Database #main/Contaminants (cRAP) Protein Database n/a
  • File
HUMAN SwissProt Protein Database #main/HUMAN SwissProt Protein Database n/a
  • File
Input MGF files (Dataset Collection) #main/Input MGF files (Dataset Collection) n/a
  • array containing
    • File
Species_UniProt_FASTA #main/Species_UniProt_FASTA n/a
  • File

Steps

ID Name Description
4 Human UniProt Microbial Proteins cRAP for MetaNovo toolshed.g2.bx.psu.edu/repos/galaxyp/fasta_merge_files_and_filter_unique_sequences/fasta_merge_files_and_filter_unique_sequences/1.2.0
5 MetaNovo toolshed.g2.bx.psu.edu/repos/galaxyp/metanovo/metanovo/1.9.4+galaxy4
6 FASTA Merge Files and Filter Unique Sequences toolshed.g2.bx.psu.edu/repos/galaxyp/fasta_merge_files_and_filter_unique_sequences/fasta_merge_files_and_filter_unique_sequences/1.2.0

Outputs

ID Name Description Type
Human UniProt Microbial Proteins (from MetaNovo) and cRAP #main/Human UniProt Microbial Proteins (from MetaNovo) and cRAP n/a
  • File
Human UniProt Microbial Proteins cRAP for MetaNovo #main/Human UniProt Microbial Proteins cRAP for MetaNovo n/a
  • File
_anonymous_output_1 #main/_anonymous_output_1 n/a
  • File
_anonymous_output_2 #main/_anonymous_output_2 n/a
  • File

Version History

1.0 (earliest) Created 2nd Jun 2025 at 10:54 by GTN Bot

Added/updated 4 files


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Created: 2nd Jun 2025 at 10:54

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