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 8 months ago
• dejunlin / hicrep
  Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support
  ☆40Updated last year
• joachimwolff / scHiCExplorer
  Single-cell Hi-C data analysis toolbox
  ☆27Updated 4 years ago
• YaqiangCao / cLoops2
  Enhanced and elegant flexible peak/loop/domain -calling and analysis tool for 1D/3D genomic data.
  ☆52Updated 6 months ago
• XiaoTaoWang / Best-Labs-of-3D-Genome
  Data and the co-authored network I extracted for lab selection in 3D genome research field
  ☆16Updated 3 years ago
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆50Updated 6 years ago
• tariks / peakachu
  Genome-wide contact analysis using sklearn
  ☆71Updated last year
• anlin00007 / OnTAD
  An Optimized Nested TAD caller for Hi-C data
  ☆25Updated 4 years ago
• parklab / HiNT
  HiC for copy Number variation and Translocation detection
  ☆40Updated 4 years ago
• HuMingLab / SnapHiC
  SnapHiC: Single Nucleus Analysis Pipeline for Hi-C Data
  ☆42Updated 2 years ago
• zhoujt1994 / scHiCluster
  ☆69Updated last month
• tanlongzhi / dip-c
  Tools to analyze Dip-C (or other 3C/Hi-C) data
  ☆72Updated last year
• ay-lab / FitHiChIP
  Statistically Significant loops from HiChIP data
  ☆46Updated last year
• vierstralab / motif-clustering
  Clustering motif models to remove redundancy
  ☆43Updated 2 years ago
• JiaqiLiZju / Nvwa
  ☆36Updated 3 years ago
• SUwonglab / PECA
  PECA is a software for inferring context specific gene regulatory network from paired gene expression and chromatin accessibility data
  ☆45Updated 2 months ago
• ay-lab / mustache
  Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation
  ☆78Updated 11 months ago
• aertslab / scATAC-seq_benchmark
  ☆19Updated 2 years ago
• zsq-berry / 3D-genome-tools
  ☆12Updated 3 years ago
• huyustats / SCATS
  A statistical tool to detect differential alternative splicing events using single-cell RNA-seq
  ☆22Updated 2 years ago
• liu-bioinfo-lab / scHiCTools
  a computational tool for analyzing single cell Hi-C data
  ☆26Updated last year
• ma-compbio / Fast-Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, tensor decomposition
  ☆19Updated 2 years ago
• GoekeLab / proActiv
  Estimation of Promoter Activity from RNA-Seq data
  ☆56Updated 5 months ago
• HYsxe / PRINT
  ☆37Updated last year
• open2c / open2c_examples
  ☆18Updated last year
• dbrg77 / scATAC_snakemake
  Snakemake pipeline for plate scATAC-seq processing
  ☆26Updated 2 years ago
• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆28Updated 2 years ago
• cbg-ethz / SCICoNE
  Single-cell copy number calling and event history reconstruction.
  ☆27Updated last year
• open2c / cooler-binder
  Cooler demo using a Jupyter notebook Binder
  ☆18Updated 5 years ago
• bernardo-de-almeida / motif-clustering
  Clustering TF motif models from multiple species (mostly focused on Drosophila and human) by similarity to remove redundancy
  ☆28Updated 3 years ago