BiG-SCAPE: Biosynthetic Gene Similarity Clustering and Prospecting Engine¶

BiG-SCAPE constructs sequence similarity networks of Biosynthetic Gene Clusters and groups them into Gene Cluster Families. The bigscape bundle packages version 1.1.8.

The PFAM database was downloaded, extracted, and processed with the following commands:

wget http://mirror.ufs.ac.za/datasets/pfam/current_release/Pfam-A.hmm.gz
gunzip Pfam-A.hmm.gz
hmmpress Pfam-A.hmm

Usage example¶

The following command can be executed in the terminal to load the bundle:

1	`module load bigscape`

The bigscape commands can be run as shown below:

bigscape --pfam_dir $PFAM_DIR

The bigscape_shell command can be used to access a shell in the bigscape bundle.

1	`bigscape_shell`

Performance notes¶

No performance notes available

Recommended resources per session¶

No recommended resources available

Benchmarks¶

No benchmarks available.

Community guides and tutorials¶

No community guides available.

Official site and documentation¶

Licensing information¶

BiG-SCAPE is licensed under the AGPL-3.0 license.

Primary citation¶

External guides and resources¶

If you know of a guide/tutorial that you have found useful, please help us share it by contacting the HPC staff at hpc@ufs.ac.za