A One-Click System for Analyzing Loop-Resolution Hi-C Experiments
☆475Aug 31, 2025Updated 6 months ago
Alternatives and similar repositories for juicer
Users that are interested in juicer are comparing it to the libraries listed below
Sorting:
- HiC-Pro: An optimized and flexible pipeline for Hi-C data processing☆431Mar 28, 2024Updated last year
- Visualization and analysis software for Hi-C data -☆283Aug 6, 2024Updated last year
- 3D de novo assembly (3D DNA) pipeline☆222Nov 29, 2023Updated 2 years ago
- HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.☆268Jul 17, 2025Updated 7 months ago
- A collection of tools for Hi-C data analysis☆631Jan 31, 2026Updated last month
- “When everything is connected to everything else, for better or worse, everything matters.” Bruce Mau☆189Jul 13, 2020Updated 5 years ago
- The tools for your .cool's☆160Jul 7, 2025Updated 7 months ago
- A cool place to store your Hi-C☆231Feb 23, 2026Updated last week
- Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…☆92Aug 29, 2022Updated 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 FAST…☆108Nov 12, 2025Updated 3 months ago
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆178Oct 20, 2024Updated last year
- HiC uniform processing pipeline☆63Nov 8, 2023Updated 2 years ago
- Extract data quickly from Juicebox via straw☆69Apr 6, 2025Updated 10 months ago
- Lightweight converter between hic and cool contact matrices.☆74Jul 15, 2024Updated last year
- A modular Hi-C mapping pipeline☆101Dec 5, 2024Updated last year
- TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.☆49Nov 16, 2022Updated 3 years ago
- Extract 3D contacts (.pairs) from sequencing alignments☆125Feb 3, 2026Updated 3 weeks ago
- Hi-C data processing pipeline☆38Feb 27, 2024Updated 2 years ago
- FAN-C: Framework for the ANalysis of C-like data☆121Mar 13, 2024Updated last year
- Hifiasm: a haplotype-resolved assembler for accurate Hifi reads☆743Mar 18, 2025Updated 11 months ago
- Yet another Hi-C scaffolding tool☆172Nov 4, 2024Updated last year
- Fast alignment and preprocessing of chromatin profiles☆213Jan 17, 2026Updated last month
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆67Jun 7, 2019Updated 6 years ago
- Mapping pipeline for data generated using Arima-HiC☆82May 22, 2024Updated last year
- Workshop on measuring, analyzing, and visualizing the 3D genome with Hi-C data.☆207May 19, 2018Updated 7 years ago
- Extensive de-novo TE Annotator☆430Oct 12, 2025Updated 4 months ago
- OLD REPOSITORY - Go to☆31Feb 6, 2018Updated 8 years ago
- ☆86Jul 12, 2024Updated last year
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆188May 17, 2024Updated last year
- The LACHESIS software, as described in Nature Biotechnology (http://dx.doi.org/10.1038/nbt.2727)☆80Oct 12, 2018Updated 7 years ago
- 1D/2D indexing and querying on bgzipped text file with a pair of genomic coordinates☆92Jan 28, 2025Updated last year
- python module to plot beautiful and highly customizable genome browser tracks☆864Jul 10, 2024Updated last year
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆45Aug 4, 2022Updated 3 years ago
- PASA software☆197Feb 12, 2025Updated last year
- 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
- Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation☆80Jan 24, 2025Updated last year
- A preprocessing and QC pipeline for HiChIP data☆40Jul 11, 2022Updated 3 years ago
- Accurate and flexible loops calling tool for 3D genomic data.☆114May 19, 2022Updated 3 years ago
- MACS -- Model-based Analysis of ChIP-Seq☆767Updated this week