multiway chromatin interaction, 3D genome, single-nucleus, hypergraph representation learning
☆31Jul 20, 2022Updated 3 years ago
Alternatives and similar repositories for MATCHA
Users that are interested in MATCHA are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- nuclear compartments, subcompartments, nuclear organization, Hi-C, autoencoder☆28Jul 5, 2024Updated last year
- The tools for your .cool's☆166Mar 19, 2026Updated 2 months ago
- We developed a protocol of in situ high throughput multi-way contact long read Pore-C sequencing (in situ HiPore-C), a strategy that inte…☆23Mar 17, 2024Updated 2 years ago
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph☆94Oct 29, 2025Updated 7 months ago
- Statistically Significant loops from HiChIP data☆46Apr 17, 2024Updated 2 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.
- Scripts and notebooks used in Akgol Oksuz et al. paper☆11Jan 18, 2021Updated 5 years ago
- Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…☆94Aug 29, 2022Updated 3 years ago
- ☆10Oct 24, 2024Updated last year
- ☆18Mar 12, 2024Updated 2 years ago
- ☆18Nov 9, 2020Updated 5 years ago
- A set of pipelines for Hi-C and ChIP-Seq analysis.☆48Apr 11, 2024Updated 2 years ago
- A collection of tools for Hi-C data analysis☆643May 28, 2026Updated last week
- Discovery of communities in Pore-C concatemers☆16Feb 12, 2025Updated last year
- A cool place to store your Hi-C☆240Jun 1, 2026Updated last week
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆42Jan 31, 2024Updated 2 years ago
- A self-contained repository of all code needed for SPRITE analysis☆21Jul 28, 2021Updated 4 years ago
- Chromatin States Map in mouse embryonic stem cell☆19Apr 11, 2018Updated 8 years ago
- Notes on single-cell Hi-C technologies, tools, and data☆89Feb 28, 2026Updated 3 months ago
- Genome-wide contact analysis using sklearn☆75Mar 23, 2024Updated 2 years ago
- ☆12May 12, 2023Updated 3 years ago
- Hi-C Interaction Frequency Inference (HIFI): High-resolution estimation of DNA-DNA interaction frequency from Hi-C data☆24Sep 28, 2022Updated 3 years ago
- Workshop on measuring, analyzing, and visualizing the 3D genome with Hi-C data.☆211May 19, 2018Updated 8 years ago
- Data processing and analysis workflow for GAGE-seq, a coassay of single-cell HiC and single-cell RNA-seq☆15Oct 6, 2025Updated 8 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- ☆12Nov 9, 2020Updated 5 years ago
- A fast and efficient tool for converting chromatin interaction data between genome assemblies☆78Jul 22, 2025Updated 10 months ago
- ☆25May 14, 2021Updated 5 years ago
- Software to compute reproducibility and quality scores for Hi-C data☆52Apr 12, 2019Updated 7 years ago
- General analysis of HiC data, including compartment A/B, domains and loops.☆14Feb 17, 2023Updated 3 years ago
- ChIA-PIPE: A fully automated pipeline for comprehensive ChIA-PET data analysis and visualization☆29Aug 13, 2021Updated 4 years ago
- chia pet analysis software☆25Jan 17, 2019Updated 7 years ago
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, genome subcompartment☆21Apr 8, 2024Updated 2 years ago
- Python library for processing and visualizing Hi-C data