Clinker

clinker is a pipeline for easily generating publication-quality gene cluster comparison figures.

Clinker GitHub Repository

Setup

Previously set this up as an env on my M3

Parsing operon-mapper files for usage in Clinker

See script make_gbk_from_operons.py
8/28/25:
Path to script on my Mac: /Users/Snacks/Documents/GitHub/toolshed/wrenches/make_gbk_from_operons_interactive.py

Usage

Input: Gene cluster files in .gbk or .gff3 format

Here's an old command I ran that may or may not be correct, ha
(clinker) ➜ antiSMASH clinker as_strict_040925/*.gbk -p 040925.html

Example on GitHub Repo:
clinker clusters/*.gbk -p <optional: file name to save static HTML>