Toolkit to split and resolve chimeric 3C/Hi-C/Micro-C reads
Project description
split3c
split3c is a toolkit for preprocessing 3C-type sequencing libraries and converting BAM alignments into .pairs files for chromatin contact analysis.
It provides three main subcommands:
split3c re-sitesplit3c ns-sitesplit3c resolve
Full documentation is available in the wiki:
Installation
pip install split3c
Or in development mode:
pip install -e .
Quick checks:
split3c --help
split3c re-site --help
split3c ns-site --help
split3c resolve --help
Main workflows
split3c re-site
Restriction enzyme-based workflow for Hi-C / HiChIP / 3C-like libraries.
split3c ns-site
Non-specific ligation workflow for Micro-C-like libraries.
Benchmark
License
split3c is released under the AGPLv3 license.
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