Description

BiG-SCAPE (Biosynthetic Gene Similarity Clustering and Prospecting Engine) clusters biosynthetic gene clusters (BGCs) into gene cluster families (GCFs) based on sequence similarity networks. It takes antiSMASH-annotated GenBank files and a Pfam database as input, and produces similarity networks and clustering results.

Input

Name
Description
Pattern

0 ()

1 ()

pfam_hmm (file)

Path to a Pfam HMM database file (e.g. Pfam-A.hmm or Pfam-A.hmm.gz). BiG-SCAPE will run hmmpress if needed. Can be obtained from the Pfam FTP site.

*.{hmm,hmm.gz}

Output

Name
Description
Pattern

0 ()

0 ()

Tools

bigscape Documentation

Biosynthetic Gene Similarity Clustering and Prospecting Engine for clustering BGCs into gene cluster families using similarity networks

https://github.com/medema-group/BiG-SCAPEdoi: 10.1038/s41589-019-0400-9License: AGPL v3-or-later
Authors