open2c / coolpuppyLinks
A versatile tool to perform pile-up analysis on Hi-C data in .cool format.
☆80Updated 7 months ago
Alternatives and similar repositories for coolpuppy
Users that are interested in coolpuppy are comparing it to the libraries listed below
Sorting:
- Lightweight converter between hic and cool contact matrices.☆73Updated 11 months ago
- Extract 3D contacts (.pairs) from sequencing alignments☆113Updated this week
- A fast and efficient tool for converting chromatin interaction data between genome assemblies☆73Updated 2 years ago
- dcHiC: Differential compartment analysis for Hi-C datasets☆69Updated last year
- A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes☆65Updated last year
- A modular Hi-C mapping pipeline☆95Updated 6 months ago
- Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…☆86Updated 2 years ago
- Genome-wide contact analysis using sklearn☆68Updated last year
- TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C☆109Updated 4 years ago
- Publication quality NGS track plotting☆113Updated 2 years ago
- HiC uniform processing pipeline☆60Updated last year
- A Python implementation for BH-FDR and HiCCUPS☆49Updated 2 months ago
- Allele-specific alignment sorting☆58Updated 2 years ago
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆65Updated 6 years ago
- Software to compute reproducibility and quality scores for Hi-C data☆47Updated 6 years ago
- Software for Quantifying Interspersed Repeat Expression☆58Updated 3 years ago
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆43Updated 2 years ago
- CALDER is a Hi-C analysis tool that allows: (1) compute chromatin domains from whole chromosome contacts; (2) derive their non-linear hie…☆23Updated 2 months ago
- Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation☆74Updated 5 months ago
- Ultraperformant reimplementation of SICER☆56Updated 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
- Docker for 4DN Hi-C processing pipeline☆60Updated 6 months ago
- FAN-C: Framework for the ANalysis of C-like data☆115Updated 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…☆73Updated 2 years ago
- HMMRATAC peak caller for ATAC-seq data☆100Updated 7 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…☆91Updated last month
- An Optimized Nested TAD caller for Hi-C data☆22Updated 3 years ago
- ☆29Updated 10 months ago
- Enhanced and elegant flexible peak/loop/domain -calling and analysis tool for 1D/3D genomic data.☆47Updated last week
- Tools to analyze Dip-C (or other 3C/Hi-C) data☆68Updated 7 months ago