NYU-BFX / hic-benchLinks
A set of pipelines for Hi-C and ChIP-Seq analysis.
☆48Updated last year
Alternatives and similar repositories for hic-bench
Users that are interested in hic-bench are comparing it to the libraries listed below
Sorting:
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆67Updated 6 years ago
- code associated with crane-nature-2015, 10.1038/nature14450☆36Updated 10 years ago
- Tutorial Website☆60Updated 4 years ago
- An easy-to-use Hi-C data processing software supporting distributed computation.☆62Updated last year
- tools to find circRNAs in RNA-seq data☆44Updated 7 years ago
- Package for analysis and characterization of differential TADs☆26Updated 3 years ago
- DCC/DAC methylation pipeline source☆57Updated 5 years ago
- TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C☆113Updated 4 years ago
- A Perl/R pipeline for plotting metagenes☆37Updated 4 years ago
- Genome-wide contact analysis using sklearn☆69Updated last year
- Allele-specific alignment sorting☆59Updated 2 years ago
- A modular, containerized pipeline for ATAC-seq data processing☆60Updated last month
- Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…☆75Updated 2 years ago
- GIREMI is a method that can identify RNA editing sites using one RNA-seq data set without requiring genome sequence data.☆44Updated 8 years ago
- ☆32Updated 7 years ago
- A method for circular DNA detection based on probabilistic mapping of ultrashort reads☆66Updated last year
- BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.☆27Updated 6 years ago
- A preprocessing and QC pipeline for HiChIP data☆40Updated 3 years ago
- TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.☆48Updated 2 years ago
- Estimate locus specific human LINE-1 expression.☆39Updated last month
- Software to compute reproducibility and quality scores for Hi-C data☆50Updated 6 years ago
- Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…☆89Updated 3 years ago
- REDItools are python scripts to investigate RNA editing at genomic scale.☆68Updated 3 months ago
- A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes☆73Updated 2 years ago
- A Python implementation for BH-FDR and HiCCUPS☆52Updated 6 months ago
- HiC for copy Number variation and Translocation detection☆39Updated 4 years ago
- HMMRATAC peak caller for ATAC-seq data☆99Updated 11 months ago
- Docker for 4DN Hi-C processing pipeline☆60Updated 11 months ago
- Full-length transcriptome splicing and mutation analysis☆84Updated last year
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆41Updated 3 years ago