tanlongzhi / dip-cView external linksLinks
Tools to analyze Dip-C (or other 3C/Hi-C) data
☆74Nov 14, 2024Updated last year
Alternatives and similar repositories for dip-c
Users that are interested in dip-c are comparing it to the libraries listed below
Sorting:
- TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C☆116Jan 8, 2026Updated last month
- Notes on single-cell Hi-C technologies, tools, and data☆86Oct 19, 2024Updated last year
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph☆91Oct 29, 2025Updated 3 months ago
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, tensor decomposition☆20Sep 12, 2023Updated 2 years ago
- R package to evaluate the reproducibility of Hi-C data☆27Jun 23, 2023Updated 2 years ago
- A fast and efficient tool for converting chromatin interaction data between genome assemblies☆77Jul 22, 2025Updated 6 months ago
- ☆69Nov 21, 2025Updated 2 months ago
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆41Jan 31, 2024Updated 2 years ago
- a computational tool for analyzing single cell Hi-C data☆25Apr 23, 2024Updated last year
- 🍹This repo includes the scripts and analysis notebook for the Droplet Hi-C manuscript☆15Feb 6, 2026Updated last week
- Scripts + resources for analyzing combinatorial Hi-C data☆32Nov 5, 2019Updated 6 years ago
- Single-cell Hi-C data analysis toolbox☆27Aug 13, 2021Updated 4 years ago
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, genome subcompartment☆21Apr 8, 2024Updated last year
- Tools for DLO HiC data analyze☆16Oct 31, 2022Updated 3 years ago
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆67Jun 7, 2019Updated 6 years ago
- A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes☆75Oct 21, 2023Updated 2 years ago
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆45Aug 4, 2022Updated 3 years ago
- A GAN-based method for Enhancing Hi-C data☆32Dec 17, 2020Updated 5 years ago
- Blazing fast toolkit to work with .hic and .cool files☆42Feb 9, 2026Updated last week
- Chromatin contact paired-read single-cell Hi-C processing module for Nuc3D and NucTools☆15Sep 15, 2025Updated 5 months ago
- A toolkit for analyzing architectural stripes☆20Dec 1, 2024Updated last year
- ☆12Jul 26, 2022Updated 3 years ago
- A Python implementation for BH-FDR and HiCCUPS☆53Dec 29, 2025Updated last month
- ☆25May 14, 2021Updated 4 years ago
- A collection of tools for Hi-C data analysis☆630Jan 31, 2026Updated 2 weeks ago
- Pan-3D genome analysis of soybean Hi-C data☆12Mar 6, 2023Updated 2 years ago
- ☆12Jul 19, 2019Updated 6 years ago
- Fontanka is a set of tools to work with fountains in Hi-C data. It aims to provide a flexible Python API and specialized CLI for calling …☆13Dec 22, 2025Updated last month
- Extract 3D contacts (.pairs) from sequencing alignments☆125Feb 3, 2026Updated last week
- SnapHiC: Single Nucleus Analysis Pipeline for Hi-C Data☆42Jul 6, 2023Updated 2 years ago
- Lightweight converter between hic and cool contact matrices.☆74Jul 15, 2024Updated last year
- A cool place to store your Hi-C☆231Feb 9, 2026Updated last week
- Web-Application for the cross-visualization of HiC and ChIP-seq data.☆18Nov 11, 2024Updated last year
- Scripts for HiRES analysis☆14Jul 26, 2024Updated last year
- DeepLoop robustly identifies enhancer-promoter interactions from low-depth and single-cell Hi-C data☆34Apr 1, 2025Updated 10 months ago
- Python bindings for hictk: read and write .cool and .hic files directly from Python☆16Feb 2, 2026Updated last week
- Python library for processing and visualizing Hi-C data☆20May 31, 2020Updated 5 years ago
- A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps☆61Aug 28, 2025Updated 5 months ago
- Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation☆79Jan 24, 2025Updated last year