HiC uniform processing pipeline
☆63Nov 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)☆12May 16, 2024Updated last year
- A One-Click System for Analyzing Loop-Resolution Hi-C Experiments☆476Aug 31, 2025Updated 6 months ago
- ENCODE whole-genome bisulfite sequencing (WGBS) pipeline☆33Feb 15, 2022Updated 4 years ago
- Python library for processing and visualizing Hi-C data☆20May 31, 2020Updated 5 years ago
- ☆25May 14, 2021Updated 4 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.
- ☆157Nov 3, 2022Updated 3 years ago
- R package to evaluate the reproducibility of Hi-C data☆27Jun 23, 2023Updated 2 years ago
- R functions for very fast eigenvector calculation☆11Jan 18, 2023Updated 3 years ago
- A Python implementation of the original DI domain caller☆12Aug 2, 2020Updated 5 years ago
- A (continuously updated) collection of references to Hi-C data. Predominantly human/mouse Hi-C data, with replicates.☆204Feb 27, 2026Updated 3 weeks 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
- Scripts and notebooks used in Akgol Oksuz et al. paper☆11Jan 18, 2021Updated 5 years ago
- ENCODE ATAC-seq pipeline☆448Jul 18, 2024Updated last year
- Genome-wide contact analysis using sklearn☆74Mar 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.
- ☆22Aug 11, 2020Updated 5 years ago
- High-performance stochastic modeling of DNA loop extrusion interactions☆18Dec 22, 2025Updated 3 months ago
- Lightweight converter between hic and cool contact matrices.☆75Jul 15, 2024Updated last year
- A collection of tools for Hi-C data analysis☆633Mar 15, 2026Updated last week
- Docker for 4DN Hi-C processing pipeline☆61Nov 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…☆92Aug 29, 2022Updated 3 years ago
- ☆12Aug 28, 2020Updated 5 years ago
- Extract 3D contacts (.pairs) from sequencing alignments☆128Feb 3, 2026Updated last month
- ENCODE ChIP-seq pipeline☆277Feb 15, 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.
- A modular Hi-C mapping pipeline☆101Dec 5, 2024Updated last year
- Visualization and analysis software for Hi-C data -☆288Aug 6, 2024Updated last year
- Extract data quickly from Juicebox via straw☆69Apr 6, 2025Updated 11 months ago
- Micro-C QC and data analysis☆16Aug 1, 2023Updated 2 years ago
- HiC-Pro: An optimized and flexible pipeline for Hi-C data processing☆431Mar 28, 2024Updated last year
- A toolkit for analyzing architectural stripes☆20Dec 1, 2024Updated last year
- ☆20Jan 1, 2022Updated 4 years ago
- A set of pipelines for Hi-C and ChIP-Seq analysis.☆48Apr 11, 2024Updated last year
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆67Jun 7, 2019Updated 6 years ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- DiffDomain is a statistically sound method for detecting differential TADs between conditions☆17Jun 27, 2025Updated 9 months ago
- Code associated with with the 2023 Nature Genetics Paper "Region Capture Micro-C reveals coalescence of enhancers and promoters into nest…☆12May 31, 2023Updated 2 years ago
- A pipeline for identifying conserved topologically associating domain boundaries among multiple species.☆16Jun 17, 2025Updated 9 months ago
- ☆18Nov 15, 2021Updated 4 years ago
- ROSE: RANK ORDERING OF SUPER-ENHANCERS☆65Nov 14, 2025Updated 4 months ago
- dcHiC: Differential compartment analysis for Hi-C datasets☆74Jan 10, 2024Updated 2 years ago
- 1D/2D indexing and querying on bgzipped text file with a pair of genomic coordinates☆92Jan 28, 2025Updated last year