CSOgroup / CALDER2
CALDER is a Hi-C analysis tool that allows: (1) compute chromatin domains from whole chromosome contacts; (2) derive their non-linear hierarchical organization and obtain sub-compartments; (3) compute nested sub-domains within each chromatin domain from short-range contacts.
☆22Updated last month
Alternatives and similar repositories for CALDER2
Users that are interested in CALDER2 are comparing it to the libraries listed below
Sorting:
- ☆22Updated last year
- DiffDomain is a statistically sound method for detecting differential TADs between conditions☆18Updated 7 months ago
- A simple tool to perform the calculation and visualization of the average chromatin A/B compartment.☆14Updated 2 years ago
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆42Updated 2 years ago
- ☆37Updated 5 years ago
- A Python implementation of the original DI domain caller☆12Updated 4 years ago
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆66Updated 5 years ago
- dcHiC: Differential compartment analysis for Hi-C datasets☆69Updated last year
- Cooler demo using a Jupyter notebook Binder☆17Updated 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 last year
- A fast and efficient tool for converting chromatin interaction data between genome assemblies☆72Updated last year
- Micro-C QC and data analysis☆16Updated last year
- scripts for analyzing the CVDC data.☆18Updated 5 years ago
- ☆11Updated 5 years ago
- code associated with crane-nature-2015, 10.1038/nature14450☆35Updated 9 years ago
- An Optimized Nested TAD caller for Hi-C data☆22Updated 3 years ago
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆38Updated last year
- HiC for copy Number variation and Translocation detection☆39Updated 3 years ago
- ☆32Updated 11 months ago
- 4C-seq processing pipeline☆23Updated 2 months ago
- A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps☆59Updated last year
- single-cell-Isoform-Sequencing-Analysis-Tools: New and powerful tools brings single-cell RNA sequencing to the Isoform level and single m…☆24Updated 9 months ago
- HiCorr: a Hi-C data bias-correction pipeline☆28Updated last month
- Genome-wide contact analysis using sklearn☆65Updated last year
- ☆24Updated 4 years ago
- Software to compute reproducibility and quality scores for Hi-C data☆47Updated 6 years ago
- snakemake pipeline for Hi-C post-processing☆22Updated 10 months ago
- A Deep Learning-Based Model for Quantifying Transposable Elements in Single-Cell Sequencing Data☆27Updated last month
- A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes☆64Updated last year
- R package to evaluate the reproducibility of Hi-C data☆26Updated last year