XiaoTaoWang / HiCPeaksLinks
A Python implementation for BH-FDR and HiCCUPS
☆49Updated 2 months ago
Alternatives and similar repositories for HiCPeaks
Users that are interested in HiCPeaks are comparing it to the libraries listed below
Sorting:
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆44Updated 2 years ago
- A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes☆67Updated last year
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆38Updated last year
- A fast and efficient tool for converting chromatin interaction data between genome assemblies☆73Updated 2 years ago
- Genome-wide contact analysis using sklearn☆68Updated last year
- Docker for 4DN Hi-C processing pipeline☆61Updated 7 months ago
- A versatile tool to perform pile-up analysis on Hi-C data in .cool format.☆80Updated 8 months ago
- TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C☆109Updated 4 years ago
- A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps☆59Updated last year
- HiC for copy Number variation and Translocation detection☆39Updated 3 years ago
- dcHiC: Differential compartment analysis for Hi-C datasets☆69Updated last year
- Extract 3D contacts (.pairs) from sequencing alignments☆113Updated 2 weeks ago
- An Optimized Nested TAD caller for Hi-C data☆22Updated 4 years ago
- R package to evaluate the reproducibility of Hi-C data☆26Updated 2 years ago
- A Python implementation of the original DI domain caller☆12Updated 4 years ago
- Code associated with with the 2023 Nature Genetics Paper "Region Capture Micro-C reveals coalescence of enhancers and promoters into nest…☆11Updated 2 years ago
- A simple tool to perform the calculation and visualization of the average chromatin A/B compartment.☆14Updated 2 years ago
- Lightweight converter between hic and cool contact matrices.☆73Updated last year
- Package for analysis and characterization of differential TADs☆23Updated 3 years ago
- code associated with crane-nature-2015, 10.1038/nature14450☆36Updated 9 years ago
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆65Updated 6 years ago
- Software to compute reproducibility and quality scores for Hi-C data☆50Updated 6 years ago
- 4C-seq processing pipeline☆23Updated 4 months ago
- Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…☆86Updated 2 years ago
- CALDER is a Hi-C analysis tool that allows: (1) compute chromatin domains from whole chromosome contacts; (2) derive their non-linear hie…☆23Updated 3 months ago
- ENCODE long read RNA-seq pipeline☆49Updated 2 years ago
- Enhanced and elegant flexible peak/loop/domain -calling and analysis tool for 1D/3D genomic data.☆47Updated last month
- TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.☆46Updated 2 years ago
- Software for Quantifying Interspersed Repeat Expression☆60Updated 3 years ago
- scripts for analyzing the CVDC data.☆19Updated 5 years ago