open2c / coolpuppyLinks
A versatile tool to perform pile-up analysis on Hi-C data in .cool format.
☆80Updated last year
Alternatives and similar repositories for coolpuppy
Users that are interested in coolpuppy are comparing it to the libraries listed below
Sorting:
- Extract 3D contacts (.pairs) from sequencing alignments☆116Updated last week
- A fast and efficient tool for converting chromatin interaction data between genome assemblies☆75Updated 3 months ago
- Lightweight converter between hic and cool contact matrices.☆74Updated last year
- dcHiC: Differential compartment analysis for Hi-C datasets☆73Updated last year
- Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…☆91Updated 3 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 computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes☆75Updated 2 years ago
- A Python implementation for BH-FDR and HiCCUPS☆52Updated 6 months ago
- Genome-wide contact analysis using sklearn☆70Updated last year
- A modular Hi-C mapping pipeline☆100Updated 11 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…☆97Updated 2 months ago
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆67Updated 6 years ago
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆44Updated 3 years ago
- Publication quality NGS track plotting☆114Updated last month
- Allele-specific alignment sorting☆60Updated 2 years ago
- Software to compute reproducibility and quality scores for Hi-C data☆50Updated 6 years ago
- FAN-C: Framework for the ANalysis of C-like data☆120Updated last year
- Quantification of transposable element expression using RNA-seq☆76Updated last year
- A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps☆61Updated 2 months ago
- Architectural stripe detection from 3D genome conformation data☆18Updated 2 months ago
- Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…☆76Updated 2 years ago
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆39Updated last year
- CALDER is a Hi-C analysis tool that allows: (1) compute chromatin domains from whole chromosome contacts; (2) derive their non-linear hie…☆24Updated 6 months ago
- Docker for 4DN Hi-C processing pipeline☆60Updated 11 months ago
- Software for Quantifying Interspersed Repeat Expression☆63Updated 3 years ago
- Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation☆77Updated 9 months ago
- code associated with crane-nature-2015, 10.1038/nature14450☆36Updated 10 years ago
- HiC uniform processing pipeline☆61Updated 2 years ago
- Tools to analyze Dip-C (or other 3C/Hi-C) data☆72Updated last year
- A package for quantifying transposable elements at a locus level for RNAseq datasets.☆29Updated last week