Alternatives and similar repositories for hicreppy

Users that are interested in hicreppy are comparing it to the libraries listed below

• dejunlin / hicrep
  Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support
  ☆38Updated last year
• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆27Updated 2 years ago
• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆44Updated 3 years ago
• ysora / stripenn
  Architectural stripe detection from 3D genome conformation data
  ☆18Updated 2 years ago
• open2c / quaich
  snakemake pipeline for Hi-C post-processing
  ☆22Updated last year
• joachimwolff / scHiCExplorer
  Single-cell Hi-C data analysis toolbox
  ☆27Updated 4 years ago
• paulsengroup / hictk
  Blazing fast toolkit to work with .hic and .cool files
  ☆38Updated last week
• Zhong-Lab-UCSD / HiCtool
  Python library for processing and visualizing Hi-C data
  ☆20Updated 5 years ago
• ay-lab / selfish
  SELFISH is a tool for finding differential chromatin interactions between two Hi-C contact maps.
  ☆17Updated 2 years ago
• XiaoTaoWang / Best-Labs-of-3D-Genome
  Data and the co-authored network I extracted for lab selection in 3D genome research field
  ☆15Updated 3 years ago
• paulsengroup / hictkpy
  Python bindings for hictk: read and write .cool and .hic files directly from Python
  ☆15Updated last week
• parklab / HiNT
  HiC for copy Number variation and Translocation detection
  ☆39Updated 4 years ago
• jsh58 / DMRfinder
  Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data
  ☆28Updated 2 years ago
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆50Updated 6 years ago
• XiaoTaoWang / HiCPeaks
  A Python implementation for BH-FDR and HiCCUPS
  ☆51Updated 4 months ago
• loosolab / UROPA
  Universal RObust Peak Annotator
  ☆16Updated last year
• tariks / peakachu
  Genome-wide contact analysis using sklearn
  ☆68Updated last year
• PouletAxel / SIP
  SIP: Significant Interaction Peak caller
  ☆15Updated 4 months ago
• 4dn-dcic / hic2cool
  Lightweight converter between hic and cool contact matrices.
  ☆74Updated last year
• rjdkmr / gcMapExplorer
  Genome Contact Map Explorer - gcMapExplorer. Visit:
  ☆21Updated 3 years ago
• complextissue / pytximport
  Feature-rich Python implementation of the tximport package for gene count estimation.
  ☆37Updated last month
• yezhengSTAT / mHiC
  ☆23Updated 5 years ago
• ay-lab / dcHiC
  dcHiC: Differential compartment analysis for Hi-C datasets
  ☆72Updated last year
• agalitsyna / RedClib
  Red-C data processing
  ☆15Updated 2 years 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 …
  ☆12Updated 2 years ago
• billgreenwald / pgltools
  Paired Genomic Loci Tool Suite
  ☆32Updated 2 years ago
• hms-dbmi / chromoscope
  Interactive multiscale visualization for structural variation in human genomes
  ☆70Updated last week
• magnitov / pentad
  A simple tool to perform the calculation and visualization of the average chromatin A/B compartment.
  ☆14Updated 2 years ago
• TaoYang-dev / hicrep
  R package to evaluate the reproducibility of Hi-C data
  ☆26Updated 2 years ago
• tjs23 / nuc_dynamics
  Particle dynamics and simulated annealing for chromosome structure calculation
  ☆29Updated last year