lh3 / hickit
TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C
☆106Updated 3 years ago
Related projects: ⓘ
- Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…☆77Updated 2 years ago
- Allele-specific alignment sorting☆52Updated last year
- Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…☆71Updated last year
- Tools to analyze Dip-C (or other 3C/Hi-C) data☆61Updated last year
- Tutorial Website☆51Updated 3 years ago
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆64Updated 5 years ago
- HiC uniform processing pipeline☆56Updated 10 months ago
- A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes☆56Updated 10 months ago
- A Perl/R pipeline for plotting metagenes☆34Updated 3 years ago
- A fast and efficient tool for converting chromatin interaction data between genome assemblies☆63Updated last year
- Software to compute reproducibility and quality scores for Hi-C data☆43Updated 5 years ago
- A set of pipelines for Hi-C and ChIP-Seq analysis.☆43Updated 5 months ago
- ☆38Updated this week
- ☆53Updated last month
- Software for Quantifying Interspersed Repeat Expression☆49Updated 2 years ago
- A self-contained repository of all code needed for SPRITE analysis☆20Updated 3 years ago
- Extract 3D contacts (.pairs) from sequencing alignments☆98Updated last week
- A method for circular DNA detection based on probabilistic mapping of ultrashort reads☆62Updated 2 months ago
- Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics☆98Updated 2 months ago
- Publication quality NGS track plotting☆103Updated 2 years ago
- Package for analysis and characterization of differential TADs☆22Updated 2 years ago
- ☆35Updated last year
- HMMRATAC peak caller for ATAC-seq data☆98Updated 2 years ago
- ENCODE long read RNA-seq pipeline☆44Updated last year
- ☆80Updated this week
- A package for quantifying transposable elements at a locus level for RNAseq datasets.☆23Updated 3 weeks ago
- ☆29Updated 6 years ago
- ☆49Updated 3 years ago
- Lightweight converter between hic and cool contact matrices.☆63Updated 2 months ago
- dcHiC: Differential compartment analysis for Hi-C datasets☆58Updated 8 months ago