aidenlab / straw
Extract data quickly from Juicebox via straw
☆68Updated last month
Alternatives and similar repositories for straw:
Users that are interested in straw are comparing it to the libraries listed below
- Lightweight converter between hic and cool contact matrices.☆71Updated 9 months ago
- Extract 3D contacts (.pairs) from sequencing alignments☆112Updated 3 months ago
- A 3D genome data processing tutorial for ISMB/ECCB 2017☆50Updated 7 years ago
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆38Updated last year
- dcHiC: Differential compartment analysis for Hi-C datasets☆68Updated last year
- Estimation of Promoter Activity from RNA-Seq data☆53Updated 3 years ago
- Genome-wide contact analysis using sklearn☆64Updated last year
- HiC uniform processing pipeline☆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
- Docker for 4DN Hi-C processing pipeline☆59Updated 5 months ago
- IDR☆31Updated 2 years 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
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆66Updated 5 years ago
- Software to compute reproducibility and quality scores for Hi-C data☆47Updated 6 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 tool for accurately detecting actively translating ORFs from Ribo-seq data☆37Updated 3 months ago
- Allele-specific alignment sorting☆55Updated 2 years ago
- a toolset for mining multi-dimensional features of the translatome with ribosome profiling data☆17Updated 3 months ago
- code associated with crane-nature-2015, 10.1038/nature14450☆34Updated 9 years ago
- HiCorr: a Hi-C data bias-correction pipeline☆28Updated last month
- Capturing protein-RNA interaction footprints from single-nucleotide CLIP-seq data☆29Updated 3 years ago
- Ultraperformant reimplementation of SICER☆56Updated 3 years ago
- Tools for analyzing DNA methylation data☆40Updated last week
- Data of genome annotation from full-stack ChromHMM model trained with 1032 datasets from 127 reference epigenomes☆35Updated 9 months ago
- A modular Hi-C mapping pipeline☆94Updated 5 months ago
- Analysis pipeline for the GUIDE-seq assay.☆78Updated last year
- A fast and efficient tool for converting chromatin interaction data between genome assemblies☆71Updated last year
- A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes☆64Updated last year
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆39Updated 3 years ago
- Package for analysis and characterization of differential TADs☆24Updated 3 years ago