Chromosome polymer simulations and in silico capture experiments
☆62Aug 9, 2026Updated this week
Alternatives and similar repositories for polychrom
Users that are interested in polychrom are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A library to analyse the structure of 1d loops and simulate loop extrusion by loop extruding factors.☆11Feb 10, 2025Updated last year
- A versatile tool to perform pile-up analysis on Hi-C data in .cool format.☆82Oct 31, 2024Updated last year
- ☆10Jun 9, 2026Updated 2 months ago
- snakemake pipeline for Hi-C post-processing☆22Jun 27, 2024Updated 2 years ago
- Python bindings to UCSC BigWig and BigBed library☆36Updated this week
- 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.
- Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps☆70Jul 7, 2026Updated last month
- A visual exploration and hypothesis testing tool for 3D genomics☆13Apr 12, 2024Updated 2 years ago
- A cool place to store your Hi-C☆242Updated this week
- The tools for your .cool's☆168Mar 19, 2026Updated 4 months ago
- A modular Hi-C mapping pipeline☆105Dec 5, 2024Updated last year
- Scripts and notebooks used in Akgol Oksuz et al. paper☆11Jan 18, 2021Updated 5 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 toolkit for analyzing architectural stripes☆23Dec 1, 2024Updated last year
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆44Jan 31, 2024Updated 2 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Extract 3D contacts (.pairs) from sequencing alignments☆137Jul 29, 2026Updated last week
- Chromatin domains bursting with flavor☆12Dec 29, 2019Updated 6 years ago
- Red-C data processing☆15Apr 18, 2023Updated 3 years ago
- Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation☆83Jan 24, 2025Updated last year
- High-performance stochastic modeling of DNA loop extrusion interactions☆18Dec 22, 2025Updated 7 months ago
- A simple tool to perform the calculation and visualization of the average chromatin A/B compartment.☆15Apr 24, 2026Updated 3 months ago
- Architectural stripe detection from 3D genome conformation data☆19Sep 15, 2025Updated 10 months ago
- just get your chrom sizes☆15Mar 17, 2026Updated 4 months ago
- A collection of tools for Hi-C data analysis☆650Jul 18, 2026Updated 3 weeks ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- ☆29Nov 7, 2023Updated 2 years ago
- Genome-wide contact analysis using sklearn☆76Mar 23, 2024Updated 2 years ago
- Blazing fast toolkit to work with .hic and .cool files☆45Jul 27, 2026Updated 2 weeks ago
- Genomic interval operations on Pandas DataFrames☆194Aug 3, 2026Updated last week
- A fast and efficient tool for converting chromatin interaction data between genome assemblies☆78Jul 22, 2025Updated last year
- Python bindings for hictk: read and write .cool and .hic files directly from Python☆16Updated this week
- SIP: Significant Interaction Peak caller☆17Apr 24, 2025Updated last year
- Python reimplementation of hicrep with compatibility for sparse matrices☆21Dec 18, 2022Updated 3 years ago
- Lightweight converter between hic and cool contact matrices.☆74Jul 15, 2024Updated 2 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- HiCorr: a Hi-C data bias-correction pipeline☆31Apr 1, 2025Updated last year
- ☆13Jul 21, 2021Updated 5 years ago
- SELFISH is a tool for finding differential chromatin interactions between two Hi-C contact maps.☆17Jun 1, 2023Updated 3 years ago
- A cross-platform method for chromatin contact normalization☆16Dec 29, 2025Updated 7 months 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 3 months ago
- Joint normalization of two Hi-C matrices, visualization and detection of differential chromatin interactions. See multiHiCcompare for the…☆22Jun 4, 2023Updated 3 years ago
- A GAN-based method for Enhancing Hi-C data☆33Dec 17, 2020Updated 5 years ago