a versatile and flexible pipeline for analysing different variants of ChIA-PET data
☆36Nov 25, 2024Updated last year
Alternatives and similar repositories for ChIA-PET2
Users that are interested in ChIA-PET2 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ChIA-PIPE: A fully automated pipeline for comprehensive ChIA-PET data analysis and visualization☆29Aug 13, 2021Updated 4 years ago
- Chromatin States Map in mouse embryonic stem cell☆19Apr 11, 2018Updated 8 years ago
- A preprocessing and QC pipeline for HiChIP data☆40Jul 11, 2022Updated 3 years ago
- Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…☆94Aug 29, 2022Updated 3 years ago
- A machine-learning algorithm to predict CTCF-mediated long-range chromatin interactions☆17Nov 7, 2018Updated 7 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- gghic makes visualization of Hi-C/-like data easily in R☆26Jan 23, 2026Updated 4 months ago
- trackc aims to produce beautiful genome tracks that are highly customizable☆19Jan 21, 2026Updated 4 months ago
- Particle dynamics and simulated annealing for chromosome structure calculation☆18Jan 17, 2018Updated 8 years ago
- HiC-Pro: An optimized and flexible pipeline for Hi-C data processing☆437Mar 28, 2024Updated 2 years ago
- Scripts and notebooks used in Akgol Oksuz et al. paper☆11Jan 18, 2021Updated 5 years ago
- HiC-Reg is a tool to predict Hi-C contact counts from one-dimensional regulatory signals☆11Aug 25, 2020Updated 5 years ago
- “When everything is connected to everything else, for better or worse, everything matters.” Bruce Mau☆190Jul 13, 2020Updated 5 years ago
- ☆20Jun 8, 2023Updated 2 years ago
- ChIA-PET, HiChIP, PLAC-Seq data analysis, with linker detection, linker filter, or restriction process for HiChIP, mapping, call cluster …☆22Jul 19, 2024Updated last year
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Paired Genomic Loci Tool Suite☆35Nov 23, 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…☆111Nov 12, 2025Updated 6 months ago
- A GAN-based method for Enhancing Hi-C data☆33Dec 17, 2020Updated 5 years ago
- A One-Click System for Analyzing Loop-Resolution Hi-C Experiments☆482Aug 31, 2025Updated 8 months ago
- Accurate and flexible loops calling tool for 3D genomic data.☆114May 19, 2022Updated 4 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
- Lightweight converter between hic and cool contact matrices.☆74Jul 15, 2024Updated last year
- Statistically Significant loops from HiChIP data☆46Apr 17, 2024Updated 2 years ago
- A fast and efficient tool for converting chromatin interaction data between genome assemblies☆78Jul 22, 2025Updated 10 months 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.
- Visualization and analysis software for Hi-C data -☆295Aug 6, 2024Updated last year
- DeepTACT: predicting three-dimensional chromatin contacts via bootstrapping deep learning☆20Jul 23, 2020Updated 5 years ago
- A 3D genome data processing tutorial for ISMB/ECCB 2017☆52Jul 21, 2017Updated 8 years ago
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, genome subcompartment☆21Apr 8, 2024Updated 2 years ago
- ☆27Sep 2, 2021Updated 4 years ago
- ☆12Nov 20, 2023Updated 2 years ago
- Enhanced and elegant flexible peak/loop/domain -calling and analysis tool for 1D/3D genomic data.☆53Jun 17, 2025Updated 11 months ago
- ☆32Sep 28, 2019Updated 6 years ago
- A legacy repository. Was replaced by distiller, cooler, and cooltools.☆21Mar 4, 2020Updated 6 years ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- ChIA-PET Utilities☆13Dec 19, 2021Updated 4 years ago
- Computational analyses of WGS, mate-pair, RNA-seq, Hi-C and Capture-C data from highly rearranged balancer chromosomes in Drosophila mela…☆10Sep 25, 2019Updated 6 years ago
- A collection of tools for Hi-C data analysis☆643Updated this week
- West Coast Dream Team Whole Genome Bisulfite Sequencing☆17Nov 7, 2025Updated 6 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
- A modular Hi-C mapping pipeline☆103Dec 5, 2024Updated last year
- Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation☆82Jan 24, 2025Updated last year