XiaoTaoWang / NeoLoopFinder
A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes
☆64Updated last year
Alternatives and similar repositories for NeoLoopFinder:
Users that are interested in NeoLoopFinder are comparing it to the libraries listed below
- A fast and efficient tool for converting chromatin interaction data between genome assemblies☆71Updated last year
- Genome-wide contact analysis using sklearn☆64Updated last year
- A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps☆59Updated last year
- TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C☆107Updated 4 years ago
- Allele-specific alignment sorting☆55Updated 2 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☆68Updated last year
- Extract 3D contacts (.pairs) from sequencing alignments☆112Updated 3 months ago
- Software to compute reproducibility and quality scores for Hi-C data☆47Updated 6 years ago
- Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…☆73Updated 2 years ago
- Tools to analyze Dip-C (or other 3C/Hi-C) data☆63Updated 5 months ago
- trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…☆89Updated last month
- Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation☆70Updated 3 months ago
- Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…☆85Updated 2 years ago
- A Python implementation for BH-FDR and HiCCUPS☆48Updated 2 weeks ago
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆42Updated 2 years ago
- Micro-C QC and data analysis☆16Updated last year
- HiCorr: a Hi-C data bias-correction pipeline☆28Updated last month
- A versatile tool to perform pile-up analysis on Hi-C data in .cool format.☆79Updated 6 months ago
- A set of pipelines for Hi-C and ChIP-Seq analysis.☆46Updated last year
- ☆61Updated 9 months ago
- Docker for 4DN Hi-C processing pipeline☆59Updated 5 months ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆39Updated 3 years ago
- A Perl/R pipeline for plotting metagenes☆37Updated 3 years ago
- Lightweight converter between hic and cool contact matrices.☆71Updated 9 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…☆22Updated 2 weeks ago
- HiC uniform processing pipeline☆59Updated last year
- ☆24Updated 3 years ago
- SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3☆38Updated 4 years ago
- A self-contained repository of all code needed for SPRITE analysis☆20Updated 3 years ago