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Welcome to the lsaBGC-Pan wiki!

lsaBGC-Pan puts together some programs from the original suite (e.g. lsaBGC-Cluster, lsaBGC-See, lsaBGC-ComprehenSeeIve, and GSeeF) and some new programs (e.g. zol, lsaBGC-Reconcile [an updated version of lsaBGC-Divergence], and lsaBGC-Sociate). lsaBGC-Pan works on both bacterial and fungal genomes and can jointly process both antiSMASH and GECCO BGC predictions.

In summary, lsaBGC-Pan is a newer and recommended workflow to the previously available lsaBGC-Easy.py and lsaBGC-EukEasy.py workflows. We plan to continue development of this workflow but maintain support for lsaBGC-Easy.py and lsaBGC-EukEasy.py.

Contents

1. overview of lsaBGC-Pan
2. comparison of workflows: what's different about lsaBGC-Pan compared to lsaBGC-(Euk)Easy.py
3. installation guide
4. tutorial on GECCO based analysis of BGCs from Cutibacterium avidum and Cutibacterium acnes
5. tutorial on joint AntiSMASH & GECCO analysis of BGCs from Streptomyces olivaceus
6. tutorial on AntiSMASH analysis of BGCs from Aspergillus flavus
7. guide to parameter selections during mid-way break
8. explanation of final spreadsheet and visual reports
9. details on new modules: lsaBGC-Reconcile and lsaBGC-Sociate