Benjamin Skubi

multiqc

cooler

mustache

samtools, bwa, bwa-mem2, bsbolt

hich, cooltools, pairtools, samtools

juicer_tools

hictk

hicexplorer

Docker image of the Ay Lab's mustache tool for Hi-C loop calling, including diff_mustache.py

java + juicer_tools from the Aiden lab

Tool for tagging files in .pairs format with restriction fragments from a .bed frag index

Create a restriction enzyme digest index in .bed format from a reference genome and REs

Process Hi-C sequencing data; v1.0.3

BSBolt for genomic alignment of bisulfite converted NGS reads

A docker image of bwa-mem2 and samtools for fast alignment of NGS data