Alternatives and similar repositories for deepC

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

• JinLabBioinfo / HiCorr
  HiCorr: a Hi-C data bias-correction pipeline
  ☆28Updated 2 months ago
• dejunlin / hicrep
  Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support
  ☆38Updated last year
• joachimwolff / scHiCExplorer
  Single-cell Hi-C data analysis toolbox
  ☆27Updated 3 years ago
• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆28Updated last year
• JinLabBioinfo / DeepLoop
  DeepLoop robustly identifies enhancer-promoter interactions from low-depth and single-cell Hi-C data
  ☆32Updated 2 months ago
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆47Updated 6 years ago
• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆43Updated 2 years ago
• liu-bioinfo-lab / scHiCTools
  a computational tool for analyzing single cell Hi-C data
  ☆25Updated last year
• LabShengLi / sci
  ☆16Updated 2 years ago
• open2c / quaich
  snakemake pipeline for Hi-C post-processing
  ☆22Updated 11 months ago
• XiaoTaoWang / EagleC
  A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps
  ☆59Updated last year
• parklab / HiNT
  HiC for copy Number variation and Translocation detection
  ☆39Updated 3 years ago
• open2c / cooler-binder
  Cooler demo using a Jupyter notebook Binder
  ☆18Updated 4 years ago
• cmdoret / hicreppy
  Python reimplementation of hicrep with compatibility for sparse matrices
  ☆18Updated 2 years ago
• rschwess / tutorial_dl_for_genomics
  A short tutorial to using DL and keras for genomics with sequence data.
  ☆15Updated 4 years ago
• Zhong-Lab-UCSD / HiCtool
  Python library for processing and visualizing Hi-C data
  ☆20Updated 5 years ago
• Hughes-Genome-Group / deepC
  A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence
  ☆33Updated last year
• ketringjoni / SuPreMo
  Pipeline for generating reference and perturbed sequences for input into predictive models.
  ☆11Updated 6 months ago
• liu-bioinfo-lab / caesar
  An accurate and interpretable computational model for predicting nucleosome resolution chromatin contact maps
  ☆10Updated last year
• SUwonglab / PECA
  PECA is a software for inferring context specific gene regulatory network from paired gene expression and chromatin accessibility data
  ☆43Updated last year
• GuanLab / Anchor
  This is the package of Yuanfang's winning algorithm in the ENCODE-DREAM in vivo Transcription Factor Binding Site Prediction Challenge
  ☆20Updated 4 years ago
• wangjr03 / FLAMINGO
  ☆17Updated last year
• 4dn-dcic / hic2cool
  Lightweight converter between hic and cool contact matrices.
  ☆73Updated 10 months ago
• zhoujt1994 / scHiCluster
  ☆65Updated last week
• tariks / peakachu
  Genome-wide contact analysis using sklearn
  ☆67Updated last year
• magnitov / pentad
  A simple tool to perform the calculation and visualization of the average chromatin A/B compartment.
  ☆14Updated 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
• FunctionLab / DeepArk
  Modeling the genomic regulatory codes of fly, mouse, worm, and fish with deep learning
  ☆17Updated 4 years ago
• CraigIDent / SpliSER
  Bioinformatic tool for Splice site Strength Estimation using RNA-seq
  ☆16Updated last week
• dekkerlab / crane-nature-2015
  code associated with crane-nature-2015, 10.1038/nature14450
  ☆35Updated 9 years ago