GTN Proteogemics3 Novel Peptide Analysis
7.0

Workflow Type: Galaxy

Proteogenomics 3: Novel peptide analysis

Associated Tutorial

This workflows is part of the tutorial Proteogenomics 3: Novel peptide analysis, available in the GTN

Features

Thanks to...

Tutorial Author(s): Subina Mehta, Timothy J. Griffin, Pratik Jagtap, Ray Sajulga, James Johnson, Praveen Kumar

gtn star logo followed by the word workflows

Inputs

ID Name Description Type
Edited_Mus_Musculus.GRCm38.86 #main/Edited_Mus_Musculus.GRCm38.86 n/a
  • File
PSM Report #main/PSM Report n/a
  • File
genomic mapping sqlite db #main/genomic mapping sqlite db n/a
  • File
mz_sqlite #main/mz_sqlite n/a
  • File
peptides for blast #main/peptides for blast n/a
  • File

Steps

ID Name Description
5 NCBI BLAST+ blastp toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastp_wrapper/2.16.0+galaxy0
6 PSM_Novel_Peptides toolshed.g2.bx.psu.edu/repos/iuc/query_tabular/query_tabular/3.3.2
7 Novel_Peptides toolshed.g2.bx.psu.edu/repos/iuc/query_tabular/query_tabular/3.3.2
8 Peptide Genomic Coordinate toolshed.g2.bx.psu.edu/repos/galaxyp/peptide_genomic_coordinate/peptide_genomic_coordinate/1.0.0
9 PepPointer toolshed.g2.bx.psu.edu/repos/galaxyp/pep_pointer/pep_pointer/0.1.3+galaxy1
10 Final_Summary_Novel_Peptides toolshed.g2.bx.psu.edu/repos/iuc/query_tabular/query_tabular/3.3.2

Outputs

ID Name Description Type
BLASTP_results #main/BLASTP_results n/a
  • File
Final_Summary_Novel_Peptides #main/Final_Summary_Novel_Peptides n/a
  • File
Novel_Peptides #main/Novel_Peptides n/a
  • File
PSM_Novel_Peptides #main/PSM_Novel_Peptides n/a
  • File
PepPointer on input dataset(s) #main/PepPointer on input dataset(s) n/a
  • File
Peptide Genomic Coodinate on input dataset(s) #main/Peptide Genomic Coodinate on input dataset(s) n/a
  • File

Version History

7.0 (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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