gerlichlab / hicognition
A visual exploration and hypothesis testing tool for 3D genomics
☆13Updated 7 months ago
Related projects ⓘ
Alternatives and complementary repositories for hicognition
- Python bindings to UCSC BigWig and BigBed library☆31Updated last week
- Python bindings for hictk: read and write .cool and .hic files directly from Python☆13Updated this week
- Blazing fast toolkit to work with .hic and .cool files☆24Updated this week
- A library to analyse the structure of 1d loops and simulate loop extrusion by loop extruding factors.☆10Updated 8 months ago
- snakemake pipeline for Hi-C post-processing☆22Updated 4 months ago
- Architectural stripe detection from 3D genome conformation data☆17Updated last year
- Python bindings to and Jupyter Notebook+Lab integration for the HiGlass viewer☆54Updated last week
- Red-C data processing☆13Updated last year
- Python reimplementation of hicrep with compatibility for sparse matrices☆17Updated last year
- SELFISH is a tool for finding differential chromatin interactions between two Hi-C contact maps.☆17Updated last year
- Processing and plotting tools for genomics data☆20Updated this week
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆36Updated 9 months ago
- Python NGS Repository☆9Updated 3 months ago
- A spatial genome aligner for analyzing multiplexed DNA-FISH imaging data.☆18Updated last year
- Data and the co-authored network I extracted for lab selection in 3D genome research field☆14Updated 2 years ago
- Comparison of Hi-C Experiments using Structural Similarity.☆26Updated last year
- a minimal, scriptable genome browser for python☆48Updated 6 months ago
- Methods for summarizing and visualizing multi-biosample functional genomic annotations☆42Updated last year
- FreeHi-C pipeline for high fidelity Hi-C data simulation.☆11Updated 3 years ago
- Lightweight converter between hic and cool contact matrices.☆67Updated 4 months ago
- Plotting average TAD heatmap for Hi-C data (give TAD segmentation and cool/hiclib interactions map).☆10Updated 3 years ago
- A fast and efficient tool for converting chromatin interaction data between genome assemblies☆67Updated last year
- dcHiC: Differential compartment analysis for Hi-C datasets☆62Updated 10 months ago
- Clodius is a tool for breaking up large data sets into smaller tiles that can subsequently be displayed using an appropriate viewer.☆39Updated 2 months ago
- CALDER is a Hi-C analysis tool that allows: (1) compute chromatin domains from whole chromosome contacts; (2) derive their non-linear hie…☆18Updated 10 months ago
- Builds a docker container wrapping higlass-server and higlass-client in nginx☆32Updated 2 years ago
- High-performance stochastic modeling of DNA loop extrusion interactions☆16Updated 2 months ago
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆40Updated 2 years ago
- Cooler demo using a Jupyter notebook Binder☆15Updated 4 years ago
- An Optimized Nested TAD caller for Hi-C data☆20Updated 3 years ago