paulsengroup / hictk
Blazing fast toolkit to work with .hic and .cool files
☆28Updated this week
Alternatives and similar repositories for hictk:
Users that are interested in hictk are comparing it to the libraries listed below
- Python bindings for hictk: read and write .cool and .hic files directly from Python☆14Updated this week
- Data and the co-authored network I extracted for lab selection in 3D genome research field☆14Updated 3 years ago
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆40Updated 2 years ago
- Python reimplementation of hicrep with compatibility for sparse matrices☆17Updated 2 years ago
- Comparison of Hi-C Experiments using Structural Similarity.☆26Updated last year
- A toolkit for analyzing architectural stripes☆19Updated 2 months ago
- FreeHi-C pipeline for high fidelity Hi-C data simulation.☆11Updated 3 years ago
- Red-C data processing☆13Updated last year
- Single-cell Hi-C data analysis toolbox☆25Updated 3 years ago
- snakemake pipeline for Hi-C post-processing☆22Updated 7 months ago
- HiC for copy Number variation and Translocation detection☆37Updated 3 years ago
- R package: TopDom - An efficient and Deterministic Method for identifying Topological Domains in Genomes☆20Updated last year
- Feature-rich Python implementation of the tximport package for gene count estimation.☆33Updated this week
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆36Updated last year
- Joint normalization of two Hi-C matrices, visualization and detection of differential chromatin interactions. See multiHiCcompare for the…☆19Updated last year
- Allo: a multi-mapped read rescue strategy for gene regulatory analyses☆24Updated 5 months ago
- ☆10Updated 4 years ago
- R package to evaluate the reproducibility of Hi-C data☆26Updated last year
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, tensor decomposition☆19Updated last year
- Architectural stripe detection from 3D genome conformation data☆17Updated last year
- An Optimized Nested TAD caller for Hi-C data☆20Updated 3 years ago
- HiCnv is used to call copy number variations and breakpoints from Hi-C data☆21Updated 10 months ago
- The Isoforms from Single-Cell; Long-read Expression Suite☆24Updated last month
- Snakemake pipeline for microexon discovery and quantification☆20Updated last month
- Web-Application for the cross-visualization of HiC and ChIP-seq data.☆15Updated 3 months ago
- DeepLoop robustly identifies enhancer-promoter interactions from low-depth and single-cell Hi-C data☆31Updated 2 years ago
- Chromatin domains bursting with flavor☆12Updated 5 years ago
- ☆20Updated 4 years ago
- Cooler demo using a Jupyter notebook Binder☆16Updated 4 years ago