Alternatives and similar repositories for FreeHiC

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

• dixonlab / hic_breakfinder
  ☆37Updated 6 years ago
• paulsengroup / hictk
  Blazing fast toolkit to work with .hic and .cool files
  ☆42Updated last week
• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆45Updated 3 years ago
• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆28Updated 2 years ago
• parklab / HiNT
  HiC for copy Number variation and Translocation detection
  ☆41Updated 4 years ago
• ay-lab / HiCnv
  HiCnv is used to call copy number variations and breakpoints from Hi-C data
  ☆23Updated last year
• 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 last month
• joachimwolff / scHiCExplorer
  Single-cell Hi-C data analysis toolbox
  ☆27Updated 4 years ago
• HenrikBengtsson / TopDom
  R package: TopDom - An efficient and Deterministic Method for identifying Topological Domains in Genomes
  ☆21Updated 2 years ago
• scoutzxb / CscoreTool
  ☆22Updated 5 years ago
• Xinglab / isoCirc
  isoCirc
  ☆10Updated 2 years ago
• CSOgroup / CALDER
  ☆22Updated 2 years ago
• seqcode / allo
  Allo: a multi-mapped read rescue strategy for gene regulatory analyses
  ☆24Updated last year
• sims-lab / CapCruncher
  Analysis tool for NG-Capture-C, Tri-C and Tiled-C data
  ☆10Updated 3 months ago
• dejunlin / hicrep
  Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support
  ☆41Updated 2 years ago
• ay-lab / HiCtrans
  HiCtrans is a pipeline to call translocations from Hi-C data
  ☆17Updated 4 years ago
• maxplanck-ie / HiCAssembler
  Software to assemble contigs/scaffolds into chromosomes using Hi-C data
  ☆28Updated last year
• AmpliconSuite / AmpliconReconstructorOM
  Reconstructs complex variation using Bionano optical mapping data and breakpoint graph data
  ☆19Updated 2 years ago
• XiaoTaoWang / StripeCaller
  A toolkit for analyzing architectural stripes
  ☆20Updated last year
• Xinglab / rMATS-long
  ☆34Updated 2 months ago
• cmdoret / hicreppy
  Python reimplementation of hicrep with compatibility for sparse matrices
  ☆18Updated 3 years ago
• timplab / nanoNOMe
  nanoNOMe (Nucleosome Occupancy and Methylome nanopore sequencing) Analysis
  ☆20Updated 3 years ago
• deeptools / HiCMatrix
  ☆13Updated 5 months ago
• qunhualilab / hicrep
  R package to evaluate reproducibility of Hi-C data
  ☆10Updated 2 years ago
• XiaoTaoWang / EagleC
  A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps
  ☆61Updated 5 months ago
• LappalainenLab / lorals
  ☆38Updated 2 years ago
• rjdkmr / gcMapExplorer
  Genome Contact Map Explorer - gcMapExplorer. Visit:
  ☆21Updated 4 years ago
• Xinglab / lr2rmats
  Long read to rMATS
  ☆32Updated 2 years ago
• XiDsLab / TAGET
  ☆20Updated 3 years ago
• omegahh / DeepHiC
  A GAN-based method for Enhancing Hi-C data
  ☆32Updated 5 years ago