HiC-Pro: an optimized and flexible pipeline for Hi-C data processing

• Published in: Genome Biology Vol. 16; no. 1; p. 259
• Main Authors: Servant, Nicolas, Varoquaux, Nelle, Lajoie, Bryan R., Viara, Eric, Chen, Chong-Jian, Vert, Jean-Philippe, Heard, Edith, Dekker, Job, Barillot, Emmanuel
• Format: Journal Article
• Language: English
• Published: England BioMed Central 01.12.2015
• Subjects: Algorithms; Alleles; Bioinformatics; Cell Line; Chromosomes; Chromosomes - chemistry; data collection; Data processing; Datasets; Deoxyribonucleic acid; DNA; Enzymes; Gene mapping; genome; Genomes; Genomics - methods; genotype; Genotypes; Humans; Life Sciences; Pipelines; Quantitative Methods; Software

HiC-Pro is an optimized and flexible pipeline for processing Hi-C data from raw reads to normalized contact maps. HiC-Pro maps reads, detects valid ligation products, performs quality controls and generates intra- and inter-chromosomal contact maps. It includes a fast implementation of the iterative...