open2c / pairtools
Extract 3D contacts (.pairs) from sequencing alignments
☆109Updated 2 months ago
Alternatives and similar repositories for pairtools:
Users that are interested in pairtools are comparing it to the libraries listed below
- A modular Hi-C mapping pipeline☆93Updated 3 months ago
- A versatile tool to perform pile-up analysis on Hi-C data in .cool format.☆79Updated 5 months ago
- Lightweight converter between hic and cool contact matrices.☆68Updated 8 months ago
- Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…☆83Updated 2 years ago
- A fast and efficient tool for converting chromatin interaction data between genome assemblies☆70Updated last year
- dcHiC: Differential compartment analysis for Hi-C datasets☆67Updated last year
- TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C☆108Updated 4 years ago
- A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes☆63Updated last year
- HiC uniform processing pipeline☆60Updated last year
- Allele-specific alignment sorting☆54Updated 2 years ago
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆66Updated 5 years ago
- Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…☆73Updated 2 years ago
- trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…☆87Updated this week
- Docker for 4DN Hi-C processing pipeline☆59Updated 4 months ago
- Publication quality NGS track plotting☆112Updated 2 years ago
- Tutorial Website☆57Updated 4 years ago
- Genome-wide contact analysis using sklearn☆64Updated last year
- Ultraperformant reimplementation of SICER☆56Updated 3 years ago
- Tools to analyze Dip-C (or other 3C/Hi-C) data☆63Updated 4 months ago
- A set of pipelines for Hi-C and ChIP-Seq analysis.☆46Updated 11 months ago
- HMMRATAC peak caller for ATAC-seq data☆100Updated 4 months ago
- FAN-C: Framework for the ANalysis of C-like data☆110Updated last year
- A method for circular DNA detection based on probabilistic mapping of ultrashort reads☆62Updated 8 months ago
- Software to compute reproducibility and quality scores for Hi-C data☆46Updated 5 years ago
- ☆60Updated 7 months ago
- HiCorr: a Hi-C data bias-correction pipeline☆28Updated this week
- A self-contained repository of all code needed for SPRITE analysis☆20Updated 3 years ago
- Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)☆75Updated last year
- A 3D genome data processing tutorial for ISMB/ECCB 2017☆50Updated 7 years ago
- Software for Quantifying Interspersed Repeat Expression☆55Updated 2 years ago