Red-C data processing
☆15Apr 18, 2023Updated 3 years ago
Alternatives and similar repositories for RedClib
Users that are interested in RedClib are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Python bindings to UCSC BigWig and BigBed library☆36Jun 22, 2026Updated last week
- 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 …☆14Dec 22, 2025Updated 6 months ago
- SELFISH is a tool for finding differential chromatin interactions between two Hi-C contact maps.☆17Jun 1, 2023Updated 3 years ago
- Plotting average TAD heatmap for Hi-C data (give TAD segmentation and cool/hiclib interactions map).☆10Jun 5, 2021Updated 5 years ago
- A simple tool to perform the calculation and visualization of the average chromatin A/B compartment.☆14Apr 24, 2026Updated 2 months 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.
- A fast and efficient tool for converting chromatin interaction data between genome assemblies☆78Jul 22, 2025Updated 11 months ago
- A visual exploration and hypothesis testing tool for 3D genomics☆13Apr 12, 2024Updated 2 years ago
- A versatile tool to perform pile-up analysis on Hi-C data in .cool format.☆82Oct 31, 2024Updated last year
- A modular Hi-C mapping pipeline☆105Dec 5, 2024Updated last year
- 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 toolkit for analyzing architectural stripes☆22Dec 1, 2024Updated last year
- Slides and demos from our SciPyConf 2019 talk☆13Sep 28, 2021Updated 4 years ago
- Architectural stripe detection from 3D genome conformation data☆19Sep 15, 2025Updated 9 months ago
- Python implementation of STATIS for analysis of several data tables☆12Aug 14, 2017Updated 8 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.
- 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
- Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps☆71Dec 16, 2022Updated 3 years ago
- ☆14Aug 30, 2025Updated 10 months ago
- Python bindings to and Jupyter Notebook+Lab integration for the HiGlass viewer☆65May 19, 2026Updated last month
- A Python implementation for BH-FDR and HiCCUPS☆54Dec 29, 2025Updated 6 months ago
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆45Aug 4, 2022Updated 3 years ago
- Data and the co-authored network I extracted for lab selection in 3D genome research field☆16Dec 26, 2021Updated 4 years ago
- nuclear compartments, subcompartments, nuclear organization, Hi-C, autoencoder☆28Jul 5, 2024Updated last year
- Extract 3D contacts (.pairs) from sequencing alignments☆133Feb 3, 2026Updated 5 months ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- A library to analyse the structure of 1d loops and simulate loop extrusion by loop extruding factors.☆11Feb 10, 2025Updated last year
- Single-cell Hi-C data analysis toolbox☆28Aug 13, 2021Updated 4 years ago
- Python reimplementation of hicrep with compatibility for sparse matrices☆19Dec 18, 2022Updated 3 years ago
- Clodius is a tool for breaking up large data sets into smaller tiles that can subsequently be displayed using an appropriate viewer.☆39Apr 20, 2026Updated 2 months ago
- Chromatin domains bursting with flavor☆12Dec 29, 2019Updated 6 years ago
- Blazing fast toolkit to work with .hic and .cool files☆44Jun 22, 2026Updated last week
- Python bindings for hictk: read and write .cool and .hic files directly from Python☆16May 25, 2026Updated last month
- Flexible HDF5 saving/loading library forked from deepdish (University of Chicago) and maintained by the Portugues lab☆16Dec 6, 2024Updated last year
- Joint normalization of two Hi-C matrices, visualization and detection of differential chromatin interactions. See multiHiCcompare for the…☆23Jun 4, 2023Updated 3 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- SIP: Significant Interaction Peak caller☆17Apr 24, 2025Updated last year
- Genome-wide contact analysis using sklearn☆76Mar 23, 2024Updated 2 years ago
- The tools for your .cool's☆166Mar 19, 2026Updated 3 months ago
- Chromosome polymer simulations and in silico capture experiments☆61Feb 18, 2026Updated 4 months ago
- dcHiC: Differential compartment analysis for Hi-C datasets☆74Jan 10, 2024Updated 2 years ago
- A declarative interactive genomics visualization library for Python.☆244Nov 24, 2025Updated 7 months ago
- QC report generator for Hi-C pairs file☆13Sep 14, 2020Updated 5 years ago