Alternatives and similar repositories for Best-Labs-of-3D-Genome:

Users that are interested in Best-Labs-of-3D-Genome are comparing it to the libraries listed below

• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆42Updated 2 years ago
• paulsengroup / hictkpy
  Python bindings for hictk: read and write .cool and .hic files directly from Python
  ☆14Updated last week
• cmdoret / hicreppy
  Python reimplementation of hicrep with compatibility for sparse matrices
  ☆17Updated 2 years ago
• parklab / HiNT
  HiC for copy Number variation and Translocation detection
  ☆38Updated 3 years ago
• open2c / quaich
  snakemake pipeline for Hi-C post-processing
  ☆22Updated 9 months ago
• ay-lab / HiCnv
  HiCnv is used to call copy number variations and breakpoints from Hi-C data
  ☆21Updated last year
• magnitov / pentad
  A simple tool to perform the calculation and visualization of the average chromatin A/B compartment.
  ☆14Updated 2 years ago
• anlin00007 / OnTAD
  An Optimized Nested TAD caller for Hi-C data
  ☆20Updated 3 years ago
• TaoYang-dev / hicrep
  R package to evaluate the reproducibility of Hi-C data
  ☆26Updated last year
• dejunlin / hicrep
  Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support
  ☆38Updated last year
• XiaoTaoWang / domaincaller
  A Python implementation of the original DI domain caller
  ☆12Updated 4 years ago
• ysora / stripenn
  Architectural stripe detection from 3D genome conformation data
  ☆17Updated last year
• XiaoTaoWang / StripeCaller
  A toolkit for analyzing architectural stripes
  ☆19Updated 4 months ago
• ahansenlab / RCMC_analysis_code
  Code associated with with the 2023 Nature Genetics Paper "Region Capture Micro-C reveals coalescence of enhancers and promoters into nest…
  ☆11Updated last year
• CSOgroup / CALDER
  ☆22Updated last year
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆46Updated 6 years ago
• paulsengroup / hictk
  Blazing fast toolkit to work with .hic and .cool files
  ☆30Updated this week
• dekkerlab / crane-nature-2015
  code associated with crane-nature-2015, 10.1038/nature14450
  ☆34Updated 9 years ago
• ay-lab / FitHiChIP
  Statistically Significant loops from HiChIP data
  ☆42Updated last year
• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆27Updated last year
• deeptools / HiCMatrix
  ☆13Updated 11 months ago
• agalitsyna / fontanka
  Fontanka is a set of tools to work with fountains in Hi-C data. It aims to provide a flexible Python API and specialized CLI for calling …
  ☆11Updated last year
• dhkron / PSYCHIC
  Code for finding putative enhancers using Hi-C data
  ☆27Updated 7 years ago
• shawnzhangyx / cvdc_scripts
  scripts for analyzing the CVDC data.
  ☆18Updated 5 years ago
• HenrikBengtsson / TopDom
  R package: TopDom - An efficient and Deterministic Method for identifying Topological Domains in Genomes
  ☆21Updated last year
• guifengwei / ChromHMM_mESC_mm10
  Chromatin States Map in mouse embryonic stem cell
  ☆15Updated 7 years ago
• ay-lab / selfish
  SELFISH is a tool for finding differential chromatin interactions between two Hi-C contact maps.
  ☆17Updated last year
• open2c / open2c_examples
  ☆17Updated last year
• CSOgroup / CALDER2
  CALDER is a Hi-C analysis tool that allows: (1) compute chromatin domains from whole chromosome contacts; (2) derive their non-linear hie…
  ☆22Updated last week
• Tian-Dechao / diffDomain
  DiffDomain is a statistically sound method for detecting differential TADs between conditions
  ☆18Updated 6 months ago