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Article Dans Une Revue Genome Biology Année : 2015

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

Eric Viara
  • Fonction : Auteur

Résumé

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 correction method and is based on a memory-efficient data format for Hi-C contact maps. In addition, HiC-Pro can use phased genotype data to build allele-specific contact maps. We applied HiC-Pro to different Hi-C datasets, demonstrating its ability to easily process large data in a reasonable time

Dates et versions

hal-01246671 , version 1 (18-12-2015)

Identifiants

Citer

Nicolas Servant, Nelle Varoquaux, R. Lajoie Bryan, Eric Viara, Chong-Jian Chen, et al.. HiC-Pro: An optimized and flexible pipeline for Hi-C data processing. Genome Biology, 2015, 16, pp.259. ⟨10.1186/s13059-015-0831-x⟩. ⟨hal-01246671⟩
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