Alternatives and similar repositories for DeepLoop

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

• JinLabBioinfo / HiCorr
  HiCorr: a Hi-C data bias-correction pipeline
  ☆29Updated 7 months ago
• dejunlin / hicrep
  Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support
  ☆39Updated last year
• YaqiangCao / cLoops2
  Enhanced and elegant flexible peak/loop/domain -calling and analysis tool for 1D/3D genomic data.
  ☆52Updated 4 months ago
• HuMingLab / SnapHiC
  SnapHiC: Single Nucleus Analysis Pipeline for Hi-C Data
  ☆41Updated 2 years ago
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆50Updated 6 years ago
• anlin00007 / OnTAD
  An Optimized Nested TAD caller for Hi-C data
  ☆24Updated 4 years ago
• joachimwolff / scHiCExplorer
  Single-cell Hi-C data analysis toolbox
  ☆27Updated 4 years ago
• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆27Updated 2 years ago
• ma-compbio / Fast-Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, tensor decomposition
  ☆19Updated 2 years ago
• tariks / peakachu
  Genome-wide contact analysis using sklearn
  ☆70Updated last year
• parklab / HiNT
  HiC for copy Number variation and Translocation detection
  ☆39Updated 4 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
• wangjuan001 / hicplus
  ☆12Updated 4 years ago
• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆44Updated 3 years ago
• tanlongzhi / dip-c
  Tools to analyze Dip-C (or other 3C/Hi-C) data
  ☆72Updated last year
• huyustats / SCATS
  A statistical tool to detect differential alternative splicing events using single-cell RNA-seq
  ☆22Updated 2 years ago
• open2c / quaich
  snakemake pipeline for Hi-C post-processing
  ☆22Updated last year
• dbrg77 / scATAC_snakemake
  Snakemake pipeline for plate scATAC-seq processing
  ☆26Updated last year
• dphansti / mango
  chia pet analysis software
  ☆25Updated 6 years ago
• HorvathLab / NGS
  Next-Gen Sequencing tools from the Horvath Lab
  ☆44Updated 2 months ago
• aertslab / scATAC-seq_benchmark
  ☆17Updated last year
• ay-lab / FitHiChIP
  Statistically Significant loops from HiChIP data
  ☆46Updated last year
• zhoujt1994 / scHiCluster
  ☆68Updated 5 months ago
• ijuric / MAPS
  ☆19Updated 2 years ago
• open2c / cooler-binder
  Cooler demo using a Jupyter notebook Binder
  ☆18Updated 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 2 months ago
• stjude / ROSE
  ROSE: RANK ORDERING OF SUPER-ENHANCERS
  ☆56Updated last year
• GuipengLi / ChIA-PET2
  a versatile and flexible pipeline for analysing different variants of ChIA-PET data
  ☆35Updated 11 months ago
• wenweixiong / MARVEL
  ☆51Updated last year
• Xieeeee / Droplet-Hi-C
  🍹This repo includes the scripts and analysis notebook for the Droplet Hi-C manuscript
  ☆14Updated 7 months ago