Skip to content

pretext

Description

pretext-suite website

A collection of the Pretext Hi-C genome contact map tools. Developed by the High-Performance Assembly Group, Wellcome Sanger Institute, UK. Includes PretextMap, a commandline tool for converting aligned read pairs in either the SAM/BAM/CRAM or pairs format into genomic contact maps (https://github.com/aidenlab/juicer/wiki/Pre, https://higlass.io/).

Environment Modules

Run module spider pretext-suite to find out what environment modules are available for this application.

Environment Variables

  • HPC_PRETEXT_DIR - installation directory
  • HPC_PRETEXT_BIN - executable directory

Categories

biology, genomics