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The Top 21 Genomics Hi C Open Source Projects

Open source projects categorized as Genomics Hi C
Categories > Science > Genomics
Categories > Hi C
Juicer ⭐ 313
A One-Click System for Analyzing Loop-Resolution Hi-C Experiments
most recent commit a year ago
Higlass ⭐ 300
Fast, flexible and extensible genome browser.
dependent packages 43total releases 240most recent commit 2 months agonpm higlass} Downloads
Hicexplorer ⭐ 197
HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
most recent commit 5 months ago
Cooler ⭐ 183
A cool place to store your Hi-C
dependent packages 27total releases 45most recent commit 3 months agopypi cooler} Downloads
Hickit ⭐ 69
TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C
most recent commit 3 years ago
Coolpuppy ⭐ 66
A versatile tool to perform pile-up analysis on Hi-C data in .cool format.
total releases 23most recent commit 3 months ago
Mustache ⭐ 50
Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation
total releases 48most recent commit 8 months ago
C.origami ⭐ 47
C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
total releases 1most recent commit 3 months ago
Chromosight ⭐ 46
Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps
dependent packages 1total releases 55most recent commit a year agopypi chromosight} Downloads
Allhic ⭐ 41
Genome scaffolding based on HiC data in heterozygous and high ploidy genomes
total releases 8most recent commit 3 years ago
Hicpeaks ⭐ 36
A Python implementation for BH-FDR and HiCCUPS
total releases 14most recent commit 8 months ago
Instagraal ⭐ 33
Large genome reassembly based on Hi-C data, continuation of GRAAL
total releases 6most recent commit a year ago
Pgltools ⭐ 23
Paired Genomic Loci Tool Suite
total releases 13most recent commit a year ago
Tadlib ⭐ 23
A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
total releases 31most recent commit 2 years ago
Hicstuff ⭐ 17
Simple library/pipeline to generate and handle Hi-C data.
dependent packages 1total releases 128most recent commit 3 years agopypi hicstuff} Downloads
Chromegcn ⭐ 16
Bioinformatics 2020: Graph Neural Networks for DNA Sequence Classification
most recent commit 3 years ago
Genomenote ⭐ 16
This Nextflow DSL2 pipeline takes aligned HiC reads, creates contact maps and a table of statistics.
most recent commit 3 months ago
Hicreppy ⭐ 14
Python reimplementation of hicrep with compatibility for sparse matrices
most recent commit a year ago
Topdom ⭐ 13
R package: TopDom - An efficient and Deterministic Method for identifying Topological Domains in Genomes
total releases 1most recent commit a year ago
Hicbrowser ⭐ 11
Simple web browser to visualize HiC tracks
most recent commit 4 years ago
Hipiler ⭐ 10
Visual exploration of large genome interaction matrices with interactive small multiples.
most recent commit 2 years ago
The 4 Most Depended On Genomics Hi C Open Source Projects
Higlass ⭐ 300
Fast, flexible and extensible genome browser.
dependent packages 43total releases 240latest release November 28, 2023most recent commit 2 months agonpm higlass} Downloads
Cooler ⭐ 183
A cool place to store your Hi-C
dependent packages 27total releases 45latest release September 11, 2023most recent commit 3 months agopypi cooler} Downloads
Hicstuff ⭐ 17
Simple library/pipeline to generate and handle Hi-C data.
dependent packages 1total releases 128latest release September 06, 2023most recent commit 3 years agopypi hicstuff} Downloads
Chromosight ⭐ 46
Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps
dependent packages 1total releases 55latest release October 05, 2022most recent commit a year agopypi chromosight} Downloads
The 10 Latest Releases In Genomics Hi C Open Source Projects
Higlass ⭐ 300
Fast, flexible and extensible genome browser.
dependent packages 43total releases 240latest release November 28, 2023most recent commit 2 months agonpm higlass} Downloads
Cooler ⭐ 183
A cool place to store your Hi-C
dependent packages 27total releases 45latest release September 11, 2023most recent commit 3 months agopypi cooler} Downloads
Hicstuff ⭐ 17
Simple library/pipeline to generate and handle Hi-C data.
dependent packages 1total releases 128latest release September 06, 2023most recent commit 3 years agopypi hicstuff} Downloads
Mustache ⭐ 50
Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation
total releases 48latest release August 29, 2023most recent commit 8 months ago
Hicpeaks ⭐ 36
A Python implementation for BH-FDR and HiCCUPS
total releases 14latest release August 14, 2023most recent commit 8 months ago
Coolpuppy ⭐ 66
A versatile tool to perform pile-up analysis on Hi-C data in .cool format.
total releases 23latest release July 11, 2023most recent commit 3 months ago
C.origami ⭐ 47
C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
total releases 1latest release November 28, 2022most recent commit 3 months ago
Chromosight ⭐ 46
Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps
dependent packages 1total releases 55latest release October 05, 2022most recent commit a year agopypi chromosight} Downloads
Tadlib ⭐ 23
A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
total releases 31latest release September 20, 2022most recent commit 2 years ago
Allhic ⭐ 41
Genome scaffolding based on HiC data in heterozygous and high ploidy genomes
total releases 8latest release May 24, 2021most recent commit 3 years ago
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