Marine Omics identifying biosynthetic gene clusters
1.0

Workflow Type: Galaxy

Secondary metabolite biosynthetic gene cluster (SMBGC) Annotation using Neural Networks Trained on Interpro Signatures

Associated Tutorial

This workflows is part of the tutorial Marine Omics identifying biosynthetic gene clusters, available in the GTN

Features

Thanks to...

Workflow Author(s): Marie Jossé

Tutorial Author(s): Marie Josse

Tutorial Contributor(s): Björn Grüning, Saskia Hiltemann

Grants(s): Fair-Ease, EuroScienceGateway

gtn star logo followed by the word workflows

Inputs

ID Name Description Type
Fasta nucelotide file Fasta nucelotide file BGC0001472.fna
  • File

Steps

ID Name Description
1 Prodigal Gene Predictor Create the protein fasta file toolshed.g2.bx.psu.edu/repos/iuc/prodigal/prodigal/2.6.3+galaxy0
2 Sanntis: Build Genbank Use of Sanntis toolshed.g2.bx.psu.edu/repos/ecology/sanntis_marine/sanntis_marine/0.9.3.5+galaxy1
3 Regex Find And Replace Remove useless * in the protein fasta file toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regex1/1.0.3
4 InterProScan Create TSV file for Sanntis toolshed.g2.bx.psu.edu/repos/bgruening/interproscan/interproscan/5.59-91.0+galaxy3
5 Sanntis: identify biosynthetic gene clusters toolshed.g2.bx.psu.edu/repos/ecology/sanntis_marine/sanntis_marine/0.9.3.5+galaxy1

Outputs

ID Name Description Type
Protein fasta file Protein fasta file n/a
  • File
Genbank file Genbank file n/a
  • File
Clean protein fasta file Clean protein fasta file n/a
  • File
Tabular file (.tsv) Tabular file (.tsv) n/a
  • File
SMBGC Annotation SMBGC Annotation n/a
  • File

Version History

1.0 (earliest) Created 2nd Jun 2025 at 11:03 by GTN Bot

Added/updated 4 files


Open master 895b8f5
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Created: 2nd Jun 2025 at 11:03

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