HiC uniform processing pipeline
☆67Nov 8, 2023Updated 2 years ago
Alternatives and similar repositories for hic-pipeline
Users that are interested in hic-pipeline are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Arima Capture HiC pipeline (Arima-CHiC)☆14May 16, 2024Updated 2 years ago
- A One-Click System for Analyzing Loop-Resolution Hi-C Experiments☆490Sep 15, 2026Updated last week
- Python library for processing and visualizing Hi-C data☆20May 31, 2020Updated 6 years ago
- ENCODE whole-genome bisulfite sequencing (WGBS) pipeline☆35Feb 15, 2022Updated 4 years ago
- ☆25May 14, 2021Updated 5 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.
- ☆168Apr 13, 2026Updated 5 months ago
- R package to evaluate the reproducibility of Hi-C data☆28Jun 23, 2023Updated 3 years ago
- R functions for very fast eigenvector calculation☆11Jan 18, 2023Updated 3 years ago
- A Python implementation of the original DI domain caller☆14Aug 2, 2020Updated 6 years ago
- A (continuously updated) collection of references to Hi-C data. Predominantly human/mouse Hi-C data, with replicates.☆209Feb 27, 2026Updated 6 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
- Scripts and notebooks used in Akgol Oksuz et al. paper☆11Jan 18, 2021Updated 5 years ago
- ENCODE ATAC-seq pipeline☆459Jul 18, 2024Updated 2 years ago
- Genome-wide contact analysis using sklearn☆78Mar 23, 2024Updated 2 years ago
- 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.
- High-performance stochastic modeling of DNA loop extrusion interactions☆18Dec 22, 2025Updated 9 months ago
- Lightweight converter between hic and cool contact matrices.☆74Jul 15, 2024Updated 2 years ago
- ☆22Aug 11, 2020Updated 6 years ago
- A collection of tools for Hi-C data analysis☆653Sep 15, 2026Updated last week
- Code associated with with the 2023 Nature Genetics Paper "Region Capture Micro-C reveals coalescence of enhancers and promoters into nest…☆12May 31, 2023Updated 3 years ago
- Docker for 4DN Hi-C processing pipeline☆62Nov 26, 2024Updated last year
- 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
- ROSE: RANK ORDERING OF SUPER-ENHANCERS☆72Nov 14, 2025Updated 10 months ago
- ☆12Aug 28, 2020Updated 6 years ago
- 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.
- ENCODE ChIP-seq pipeline☆282Feb 15, 2024Updated 2 years ago
- Extract data quickly from Juicebox via straw☆70Apr 6, 2025Updated last year
- Extract 3D contacts (.pairs) from sequencing alignments☆138Jul 29, 2026Updated last month
- Visualization and analysis software for Hi-C data -☆304Sep 2, 2026Updated 3 weeks ago
- A modular Hi-C mapping pipeline☆106Dec 5, 2024Updated last year
- Micro-C QC and data analysis☆18Aug 1, 2023Updated 3 years ago
- A toolkit for analyzing architectural stripes☆23Dec 1, 2024Updated last year
- A set of pipelines for Hi-C and ChIP-Seq analysis.☆48Apr 11, 2024Updated 2 years ago
- DiffDomain is a statistically sound method for detecting differential TADs between conditions☆18Jun 27, 2025Updated last year
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆68Jun 7, 2019Updated 7 years ago
- ☆21Jan 1, 2022Updated 4 years ago
- dcHiC: Differential compartment analysis for Hi-C datasets☆74Jan 10, 2024Updated 2 years ago
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆45Aug 4, 2022Updated 4 years ago
- ☆18Nov 15, 2021Updated 4 years ago
- A pipeline for identifying conserved topologically associating domain boundaries among multiple species.☆17Jun 17, 2025Updated last year
- 1D/2D indexing and querying on bgzipped text file with a pair of genomic coordinates☆94Jan 28, 2025Updated last year