Alternatives and similar repositories for DeepHiC

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

• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆28Updated 2 years ago
• dejunlin / hicrep
  Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support
  ☆41Updated last year
• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆45Updated 3 years ago
• paulsengroup / hictk
  Blazing fast toolkit to work with .hic and .cool files
  ☆42Updated this week
• joachimwolff / scHiCExplorer
  Single-cell Hi-C data analysis toolbox
  ☆27Updated 4 years ago
• awjga / PORE-cupine
  First version of PORE-cupine. Detecting SHAPE modification using direct RNA sequencing
  ☆14Updated 2 years ago
• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆38Updated 9 months ago
• comprna / CHEUI
  Concurrent identification of m6A and m5C modifications in individual molecules from nanopore sequencing
  ☆42Updated last year
• rjdkmr / gcMapExplorer
  Genome Contact Map Explorer - gcMapExplorer. Visit:
  ☆21Updated 3 years ago
• keleslab / FreeHiC
  FreeHi-C pipeline for high fidelity Hi-C data simulation.
  ☆12Updated 4 years ago
• PSI-Lab / HiCSR
  HiCSR: a Hi-C super-resolution framework for producing highly realistic contact maps
  ☆15Updated 3 years ago
• Zhong-Lab-UCSD / HiCtool
  Python library for processing and visualizing Hi-C data
  ☆20Updated 5 years ago
• XiaoTaoWang / EagleC
  A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps
  ☆61Updated 4 months ago
• srbehera / DRAGEN_Analysis
  ☆38Updated last year
• cmdoret / hicreppy
  Python reimplementation of hicrep with compatibility for sparse matrices
  ☆18Updated 3 years ago
• tjs23 / nuc_dynamics
  Particle dynamics and simulated annealing for chromosome structure calculation
  ☆28Updated last year
• HKU-BAL / Clair3-RNA
  Clair3-RNA - a long-read small variant caller for RNA sequencing data
  ☆36Updated 2 weeks ago
• LappalainenLab / lorals
  ☆38Updated 2 years ago
• HenrikBengtsson / TopDom
  R package: TopDom - An efficient and Deterministic Method for identifying Topological Domains in Genomes
  ☆21Updated 2 years ago
• XiDsLab / TAGET
  ☆20Updated 3 years ago
• multiz / multiz
  DNA multiple sequence aligner, official version from Penn State's Miller Lab
  ☆36Updated 6 years ago
• Xinglab / isoCirc
  isoCirc
  ☆10Updated 2 years ago
• comprna / R2Dtool
  Analyse RNA feature distributions.
  ☆18Updated last year
• parklab / HiNT
  HiC for copy Number variation and Translocation detection
  ☆40Updated 4 years ago
• seqcode / allo
  Allo: a multi-mapped read rescue strategy for gene regulatory analyses
  ☆24Updated last year
• koszullab / hicstuff
  Simple library/pipeline to generate and handle Hi-C data.
  ☆39Updated last year
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆50Updated 6 years ago
• Xinglab / lr2rmats
  Long read to rMATS
  ☆32Updated 2 years ago
• mirnylab / hiclib-legacy
  A legacy repository. Was replaced by distiller, cooler, and cooltools.
  ☆21Updated 5 years ago
• BlanchetteLab / HIFI
  Hi-C Interaction Frequency Inference (HIFI): High-resolution estimation of DNA-DNA interaction frequency from Hi-C data
  ☆24Updated 3 years ago