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A collection of tools for Hi-C data analysis
Created
2018-03-29
536 commits to master branch, last one 3 days ago
A One-Click System for Analyzing Loop-Resolution Hi-C Experiments
Created
2015-12-24
404 commits to main branch, last one about a month ago
Customizable workflows based on snakemake and python for the analysis of NGS data
Created
2016-03-23
4,015 commits to master branch, last one about a month ago
Fast, flexible and extensible genome browser.
Created
2016-04-12
5,096 commits to develop branch, last one 4 months ago
A cool place to store your Hi-C
Created
2016-01-13
1,084 commits to master branch, last one 3 months ago
A (continuously updated) collection of references to Hi-C data. Predominantly human/mouse Hi-C data, with replicates.
Created
2017-11-07
129 commits to master branch, last one 2 months ago
HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data
Created
2023-11-09
86 commits to main branch, last one 11 days ago
Accurate and flexible loops calling tool for 3D genomic data.
Created
2017-06-26
143 commits to master branch, last one 2 years ago
TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C
Created
2018-04-09
288 commits to master branch, last one 3 years ago
TADbit is a complete Python library to deal with all steps to analyze, model and explore 3C-based data. With TADbit the user can map FASTQ files to obtain raw interaction binned matrices (Hi-C like ma...
Created
2013-08-29
2,626 commits to master branch, last one 2 months ago
Extract 3D contacts (.pairs) from sequencing alignments
Created
2017-02-23
714 commits to master branch, last one 19 days ago
Analysis of Chromosome Conformation Capture data (Hi-C)
Created
2019-04-09
471 commits to master branch, last one about a year ago
1D/2D indexing and querying on bgzipped text file with a pair of genomic coordinates
Created
2016-10-28
743 commits to master branch, last one 7 months ago
A modular Hi-C mapping pipeline
Created
2017-04-25
298 commits to master branch, last one about a year ago
A versatile tool to perform pile-up analysis on Hi-C data in .cool format.
Created
2018-09-03
854 commits to master branch, last one 9 days ago
GENome Organisation Visual Analytics
Created
2016-08-10
890 commits to master branch, last one 6 months ago
Lightweight converter between hic and cool contact matrices.
Created
2017-01-26
217 commits to master branch, last one 10 months ago
A fast and efficient tool for converting chromatin interaction data between genome assemblies
Created
2021-01-23
35 commits to master branch, last one about a year ago
Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation
Created
2020-02-19
205 commits to master branch, last one 5 months ago
Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps
Created
2019-07-10
697 commits to master branch, last one about a year ago
C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
Created
2022-10-12
89 commits to main branch, last one 6 months ago
Genome scaffolding based on HiC data in heterozygous and high ploidy genomes
Created
2017-11-06
343 commits to main branch, last one 3 years ago
dcHiC: Differential compartment analysis for Hi-C datasets
Created
2020-06-25
405 commits to master branch, last one 8 months ago
Docker for 4DN Hi-C processing pipeline
Created
2017-03-03
903 commits to master branch, last one 5 years ago
A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes
Created
2021-02-09
99 commits to master branch, last one 11 months ago
An easy-to-use Hi-C data processing software supporting distributed computation.
Created
2014-12-16
407 commits to master branch, last one about a month ago
Chromosome polymer simulations and in silico capture experiments
Created
2019-03-30
333 commits to master branch, last one about a year ago