XiaoTaoWang / HiCPeaks

Related projects ⓘ

Alternatives and complementary repositories for HiCPeaks

• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆40Updated 2 years ago
• XiaoTaoWang / NeoLoopFinder
  A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes
  ☆60Updated last year
• XiaoTaoWang / HiCLift
  A fast and efficient tool for converting chromatin interaction data between genome assemblies
  ☆67Updated last year
• dejunlin / hicrep
  Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support
  ☆36Updated 9 months ago
• tariks / peakachu
  Genome-wide contact analysis using sklearn
  ☆59Updated 7 months ago
• cmdoret / hicreppy
  Python reimplementation of hicrep with compatibility for sparse matrices
  ☆17Updated last year
• Zhong-Lab-UCSD / HiCtool
  Python library for processing and visualizing Hi-C data
  ☆20Updated 4 years ago
• magnitov / pentad
  A simple tool to perform the calculation and visualization of the average chromatin A/B compartment.
  ☆13Updated last year
• XiaoTaoWang / domaincaller
  A Python implementation of the original DI domain caller
  ☆13Updated 4 years ago
• ren-lab / hic-pipeline
  ☆24Updated 3 years ago
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆44Updated 5 years ago
• parklab / HiNT
  HiC for copy Number variation and Translocation detection
  ☆35Updated 3 years ago
• ay-lab / dcHiC
  dcHiC: Differential compartment analysis for Hi-C datasets
  ☆62Updated 10 months ago
• dovetail-genomics / Micro-C
  Micro-C QC and data analysis
  ☆12Updated last year
• open2c / quaich
  snakemake pipeline for Hi-C post-processing
  ☆22Updated 4 months ago
• shawnzhangyx / cvdc_scripts
  scripts for analyzing the CVDC data.
  ☆17Updated 4 years ago
• zhongmicai / Hic_tools_collection
  ☆10Updated 5 years ago
• ysora / stripenn
  Architectural stripe detection from 3D genome conformation data
  ☆17Updated last year
• 4dn-dcic / hic2cool
  Lightweight converter between hic and cool contact matrices.
  ☆67Updated 4 months ago
• TaoYang-dev / hicrep
  R package to evaluate the reproducibility of Hi-C data
  ☆25Updated last year
• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆26Updated last year
• lh3 / hickit
  TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C
  ☆107Updated 3 years ago
• open2c / cooler-binder
  Cooler demo using a Jupyter notebook Binder
  ☆15Updated 4 years ago
• dekkerlab / crane-nature-2015
  code associated with crane-nature-2015, 10.1038/nature14450
  ☆34Updated 9 years ago
• anlin00007 / OnTAD
  An Optimized Nested TAD caller for Hi-C data
  ☆20Updated 3 years ago
• deLaatLab / pipe4C
  4C-seq processing pipeline
  ☆22Updated 7 months ago
• YaqiangCao / cLoops2
  Enhanced and elegant flexible peak/loop/domain -calling and analysis tool for 1D/3D genomic data.
  ☆45Updated 3 months ago
• agalitsyna / avTAD
  Plotting average TAD heatmap for Hi-C data (give TAD segmentation and cool/hiclib interactions map).
  ☆10Updated 3 years ago
• 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…
  ☆18Updated 10 months ago
• vaquerizaslab / tadtool
  TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.
  ☆43Updated 2 years ago