magnitov / pentadLinks
A simple tool to perform the calculation and visualization of the average chromatin A/B compartment.
☆14Updated 2 years ago
Alternatives and similar repositories for pentad
Users that are interested in pentad are comparing it to the libraries listed below
Sorting:
- A Python implementation for BH-FDR and HiCCUPS☆52Updated 6 months ago
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆44Updated 3 years ago
- Code associated with with the 2023 Nature Genetics Paper "Region Capture Micro-C reveals coalescence of enhancers and promoters into nest…☆12Updated 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…☆24Updated 7 months ago
- A fast and efficient tool for converting chromatin interaction data between genome assemblies☆75Updated 3 months ago
- A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps☆61Updated 2 months ago
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆39Updated last year
- an efficient Hi-C data processing pipeline☆17Updated last year
- A Python implementation of the original DI domain caller☆12Updated 5 years ago
- ☆12Updated 6 years ago
- ☆22Updated 2 years ago
- 4C-seq processing pipeline☆26Updated 7 months ago
- A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes☆75Updated 2 years ago
- ☆37Updated 6 years ago
- Hi-C Interaction Frequency Inference (HIFI): High-resolution estimation of DNA-DNA interaction frequency from Hi-C data☆24Updated 3 years ago
- Enhanced and elegant flexible peak/loop/domain -calling and analysis tool for 1D/3D genomic data.☆52Updated 4 months ago
- dcHiC: Differential compartment analysis for Hi-C datasets☆73Updated last year
- Software to compute reproducibility and quality scores for Hi-C data☆50Updated 6 years ago
- Long-read Isoform Quantification and Analysis☆38Updated 7 months ago
- ☆20Updated last year
- A versatile tool to perform pile-up analysis on Hi-C data in .cool format.☆80Updated last year
- Summarise and plot data from long-read ONT (direct RNA/cDNA) BAM files☆15Updated last year
- DiffDomain is a statistically sound method for detecting differential TADs between conditions☆17Updated 4 months ago
- scripts for analyzing the CVDC data.☆19Updated 5 years ago
- code associated with crane-nature-2015, 10.1038/nature14450☆36Updated 10 years ago
- Fontanka is a set of tools to work with fountains in Hi-C data. It aims to provide a flexible Python API and specialized CLI for calling …☆12Updated 2 years ago
- ☆22Updated 5 years ago
- An Optimized Nested TAD caller for Hi-C data☆24Updated 4 years ago
- Docker for 4DN Hi-C processing pipeline☆60Updated 11 months ago
- Cooler demo using a Jupyter notebook Binder☆18Updated 5 years ago