HiC-Pro was designed to process Hi-C data, from raw fastq files (paired-end Illumina data) to normalized contact maps. It supports the main Hi-C protocols, including digestion protocols as well as protocols that do not require restriction enzymes such as DNase Hi-C.

HiC-Pro proposes a fast implementation of the original ICE normalization algorithm (Imakaev et al. 2012), making the assumption of equal visibility of each fragment. The ICE normalization can be used as a standalone python package through the iced python package .

HiC-Pro: An optimized and flexible pipeline for Hi-C data processing - nservant/HiC-Pro

In average, HiC-Pro requires 4 times more space than the raw data (more if the fastq files are compressed). The main part of this disk space is required for the mapping only, as HiC-Pro will map R1 and R2 independantly, in two steps. And then, …

HiC-Pro was designed to process Hi-C data, from raw fastq files (paired-end Illumina data) to normalized contact maps. It supports the main Hi-C protocols, including digestion protocols as well as protocols that do not require restriction enzymes such as DNase Hi-C.

2025年2月20日 · Urgent help: Error - Installation - config system not detected. Please (re) install HiC-Pro !

HiC-Pro: An optimized and flexible pipeline for Hi-C data processing - nservant/HiC-Pro

In order to ease the installation of HiC-Pro dependancies, we provide a `yml` file for conda with all required tools.

scripts to run singularity image of hicpro. Contribute to CellFateNucOrg/hicpro development by creating an account on GitHub.

2020年1月30日 · You can run HiC-Pro in stepwise mode with the -s option (see the manual for details). In this case, the input (-i) has to be updated for each step. As you did before to create the maps, you provided the .validPairs as an input ...