Joint normalization of two Hi-C matrices, visualization and detection of differential chromatin interactions. See multiHiCcompare for the analysis of multiple Hi-C matrices
☆22Sep 17, 2026Updated last month
Alternatives and similar repositories for HiCcompare
Users that are interested in HiCcompare are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Joint normalization of multiple Hi-C matrices, visualization and detection of differential chromatin interactions, supporting covariates.☆10Jul 9, 2026Updated 3 months ago
- A Python implementation for BH-FDR and HiCCUPS☆55Dec 29, 2025Updated 10 months ago
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆44Jan 31, 2024Updated 2 years ago
- ☆12Jan 18, 2023Updated 3 years ago
- Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps☆71Sep 15, 2026Updated last month
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- R package: TopDom - An efficient and Deterministic Method for identifying Topological Domains in Genomes☆23Sep 1, 2026Updated 2 months ago
- ☆23Aug 11, 2020Updated 6 years ago
- SELFISH is a tool for finding differential chromatin interactions between two Hi-C contact maps.☆17Jun 1, 2023Updated 3 years ago
- HiC-Reg is a tool to predict Hi-C contact counts from one-dimensional regulatory signals☆11Aug 25, 2020Updated 6 years ago
- Extract 3D contacts (.pairs) from sequencing alignments☆138Jul 29, 2026Updated 3 months ago
- Genome-wide contact analysis using sklearn☆79Mar 23, 2024Updated 2 years ago
- Detecting differentially interacting genomic regions from Hi-C contact maps☆12Mar 11, 2024Updated 2 years ago
- GENome Organisation Visual Analytics☆91Feb 3, 2026Updated 8 months ago
- Chromatin domains bursting with flavor☆12Dec 29, 2019Updated 6 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- A versatile tool to perform pile-up analysis on Hi-C data in .cool format.☆82Oct 31, 2024Updated 2 years ago
- Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…☆96Aug 29, 2022Updated 4 years ago
- Lightweight converter between hic and cool contact matrices.☆74Jul 15, 2024Updated 2 years ago
- Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation☆84Jan 24, 2025Updated last year
- ☆21Jan 1, 2022Updated 4 years ago
- Data and the co-authored network I extracted for lab selection in 3D genome research field☆16Dec 26, 2021Updated 4 years ago
- HiCtrans is a pipeline to call translocations from Hi-C data☆17Sep 27, 2021Updated 5 years ago
- Hi-C data processing pipeline☆42Feb 27, 2024Updated 2 years ago
- An easy-to-use Hi-C data processing software supporting distributed computation.☆66Jul 3, 2026Updated 3 months ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Extract data quickly from Juicebox via straw☆70Apr 6, 2025Updated last year
- Python NGS Repository☆10Apr 22, 2026Updated 6 months ago
- A fast and efficient tool for converting chromatin interaction data between genome assemblies☆78Jul 22, 2025Updated last year
- Statistically Significant loops from HiChIP data☆50Apr 17, 2024Updated 2 years ago
- An R package for creating 3D barplots☆12Jan 8, 2023Updated 3 years ago
- FIREcaller: an R package for detecting frequently interacting re-gions from Hi-C data☆14Nov 4, 2022Updated 3 years ago
- The tools for your .cool's☆172Updated this week
- A preprocessing and QC pipeline for HiChIP data☆40Jul 11, 2022Updated 4 years ago
- Fast SAM/BAM sorter.☆10Updated this week
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Python bindings to UCSC BigWig and BigBed library☆37Sep 14, 2026Updated last month
- ☆18Mar 12, 2024Updated 2 years ago
- ☆10May 2, 2023Updated 3 years ago
- ☆18Aug 14, 2024Updated 2 years ago
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆45Aug 4, 2022Updated 4 years ago
- Software for comparing contact maps from HiC, CaptureC and other 3D genome data.☆26May 21, 2018Updated 8 years ago
- ☆14Dec 15, 2019Updated 6 years ago