BlanchetteLab / RefHiCView external linksLinks
A reference panel guided topological structure annotation of Hi-C data
☆10Mar 23, 2023Updated 2 years ago
Alternatives and similar repositories for RefHiC
Users that are interested in RefHiC are comparing it to the libraries listed below
Sorting:
- 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 …☆12Dec 22, 2025Updated last month
- DiffDomain is a statistically sound method for detecting differential TADs between conditions☆17Jun 27, 2025Updated 7 months ago
- 3DGB is a workflow to build 3D models of genomes from HiC data☆13Jan 26, 2026Updated 2 weeks ago
- R package to evaluate the reproducibility of Hi-C data☆27Jun 23, 2023Updated 2 years ago
- ☆13Jul 21, 2021Updated 4 years ago
- An effective alignment tool for long noisy 3C data (e.g. Pore-C and C-walk)☆14Oct 23, 2024Updated last year
- Hi-C data analysis tool☆13May 31, 2017Updated 8 years ago
- ggideogram is a ggplot2 extension package for drawing chromosome diagrams☆17Nov 29, 2024Updated last year
- HiCBin: binning metagenomic contigs and recovering metagenome-assembled genomes using Hi-C contact maps☆14May 4, 2023Updated 2 years ago
- Genomics 3D Visualizer☆14Jun 14, 2024Updated last year
- A simple tool to perform the calculation and visualization of the average chromatin A/B compartment.☆14Mar 9, 2023Updated 2 years ago
- A Python implementation of the original DI domain caller☆12Aug 2, 2020Updated 5 years ago
- A pipeline for identifying conserved topologically associating domain boundaries among multiple species.☆16Jun 17, 2025Updated 7 months ago
- ☆16Dec 25, 2024Updated last year
- Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps☆68Dec 16, 2022Updated 3 years 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 toolkit for analyzing architectural stripes☆20Dec 1, 2024Updated last year
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, tensor decomposition☆20Sep 12, 2023Updated 2 years ago
- SELFISH is a tool for finding differential chromatin interactions between two Hi-C contact maps.☆17Jun 1, 2023Updated 2 years ago
- Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation☆79Jan 24, 2025Updated last year
- A utility script to manage local docker instances of HiGlass☆24Jul 6, 2023Updated 2 years ago
- MethGo: a comprehensive tool for analyzing whole-genome bisulfite sequencing data☆21Apr 24, 2017Updated 8 years ago
- ☆21Apr 23, 2024Updated last year
- A legacy repository. Was replaced by distiller, cooler, and cooltools.☆21Mar 4, 2020Updated 5 years ago
- Architectural stripe detection from 3D genome conformation data☆18Sep 15, 2025Updated 4 months ago
- Joint normalization of two Hi-C matrices, visualization and detection of differential chromatin interactions. See multiHiCcompare for the…☆23Jun 4, 2023Updated 2 years ago
- snakemake pipeline for Hi-C post-processing☆22Jun 27, 2024Updated last year
- CALDER is a Hi-C analysis tool that allows: (1) compute chromatin domains from whole chromosome contacts; (2) derive their non-linear hie…☆26Apr 16, 2025Updated 9 months ago
- direct comparison of circular and linear RNA expression☆23Jan 17, 2021Updated 5 years ago
- ENCODE whole-genome bisulfite sequencing (WGBS) pipeline☆32Feb 15, 2022Updated 3 years ago
- BitMapperBS: a fast and accurate read aligner for whole-genome bisulfite sequencing☆31Sep 15, 2019Updated 6 years ago
- Tools to analyze Dip-C (or other 3C/Hi-C) data☆74Nov 14, 2024Updated last year
- Lightweight converter between hic and cool contact matrices.☆74Jul 15, 2024Updated last year
- DNA multiple sequence aligner, official version from Penn State's Miller Lab☆36Mar 27, 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
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆67Jun 7, 2019Updated 6 years ago
- Builds a docker container wrapping higlass-server and higlass-client in nginx☆31May 31, 2022Updated 3 years ago
- Statistically Significant loops from HiChIP data☆46Apr 17, 2024Updated last year
- Python bindings to UCSC BigWig and BigBed library☆35Jan 28, 2026Updated 2 weeks ago