kundajelab / 3DChromatin_ReplicateQC
Software to compute reproducibility and quality scores for Hi-C data
☆46Updated 6 years ago
Alternatives and similar repositories for 3DChromatin_ReplicateQC:
Users that are interested in 3DChromatin_ReplicateQC are comparing it to the libraries listed below
- dcHiC: Differential compartment analysis for Hi-C datasets☆68Updated last year
- HiC for copy Number variation and Translocation detection☆38Updated 3 years ago
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆41Updated 2 years ago
- code associated with crane-nature-2015, 10.1038/nature14450☆34Updated 9 years ago
- Python library for processing and visualizing Hi-C data☆20Updated 4 years ago
- Tutorial Website☆57Updated 4 years ago
- IDR☆31Updated 2 years ago
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆66Updated 5 years ago
- A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes☆63Updated last year
- ATAC-seq processing pipeline☆32Updated 3 years ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆39Updated 3 years ago
- Genomic Association Tester☆31Updated last year
- TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.☆44Updated 2 years ago
- 4C-seq processing pipeline☆23Updated 3 weeks ago
- A modular, containerized pipeline for ATAC-seq data processing☆55Updated 2 weeks ago
- A preprocessing and QC pipeline for HiChIP data☆38Updated 2 years ago
- A self-contained repository of all code needed for SPRITE analysis☆20Updated 3 years ago
- HiCorr: a Hi-C data bias-correction pipeline☆28Updated last week
- Genome-wide contact analysis using sklearn☆64Updated last year
- ☆16Updated 6 years ago
- A set of pipelines for Hi-C and ChIP-Seq analysis.☆46Updated last year
- An Optimized Nested TAD caller for Hi-C data☆20Updated 3 years ago
- Comparison of Hi-C Experiments using Structural Similarity.☆27Updated last year
- scripts for analyzing the CVDC data.☆18Updated 5 years ago
- Statistically Significant loops from HiChIP data☆41Updated 11 months ago
- chia pet analysis software☆25Updated 6 years ago
- TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C☆108Updated 4 years ago
- CLIP-seq Analysis of Multi-mapped reads☆30Updated 3 years ago
- A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps☆59Updated last year
- A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.☆35Updated 3 years ago