Discover Community Create You

Loading publication...

Noodle always counts identifier-free feature events for service operation. With your permission, Google Analytics can also estimate audience and engagement. Search text, publication identifiers, cookies, IP addresses and browser fingerprints are never included in Noodle's first-party event counters.

Privacy details

Article

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

Genome biology - 1 Dec 2015

Servant Nicolas, Varoquaux Nelle, Lajoie Bryan R, Viara Eric, Chen Chong-Jian, Vert Jean-Philippe, Heard Edith, Dekker Job, Barillot Emmanuel

Abstract excerpt

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...

Read the complete abstract on PubMed

Topics

Share this publication in a Topic to start or enrich a Post.

Share to Algorithms
Share to Alleles
Share to Cell Line

Methodology Data sources Editorial policy Privacy About Contact Helena Bioinformatics

Share to Chromosomes

Share to Genomics

Share to Software

Source

Open in PubMed Open full text

Identifiers

PMID: 26619908
DOI: 10.1186/s13059-015-0831-x
PMCID: PMC4665391

Provenance

PubMed metadata and Literature Corpus relationships. Corpus snapshot updated 7 Sept 2026. Manifest publication-graph-cohort-2026-09-07.1.

Source receipt: pubmed, retrieved 7 Sept 2026.

Related research

Semantic proximity does not establish scientific evidence.

Research trail→

Click a neighbor to travelStep 1 · 12 closest

HiC-Pro: an optimized and flexible pipeline for Hi-C data processing.PMID 26619908Read ↗

HiCLift: A fast and efficient tool for converting chromatin interaction data between genome assembliesSemantic proximity Read ↗

HiTea: a computational pipeline to identify non-reference transposable element insertions in Hi-C dataSemantic proximity Read ↗

CHiCAGO: robust detection of DNA looping interactions in Capture Hi-C data.Semantic proximity Read ↗

GITAR: an Open Source Tool for Analysis and Visualization of Hi-C DataSemantic proximity Read ↗

CHiCAGO: Robust Detection of DNA Looping Interactions in Capture Hi-C dataSemantic proximity Read ↗

Extended haplotype-phasing of long-read de novo genome assemblies using Hi-C.Semantic proximity Read ↗

AutoHiC: a deep-learning method for automatic and accurate chromosome-level genome assemblySemantic proximity Read ↗

MaxHiC: robust estimation of chromatin interaction frequency in Hi-C and capture Hi-C experimentsSemantic proximity Read ↗

Extended haplotype phasing of <i>de novo</i> genome assemblies with FALCON-PhaseSemantic proximity Read ↗

ChIA-PET2: a versatile and flexible pipeline for ChIA-PET data analysis.Semantic proximity Read ↗

Chicdiff: a computational pipeline for detecting differential chromosomal interactions in Capture Hi-C dataSemantic proximity Read ↗

Measuring the reproducibility and quality of Hi-C dataSemantic proximity Read ↗

⌁Select a neighboring publication to make it the new centre.