Alternatives and similar repositories for docker-4dn-hic:

Users that are interested in docker-4dn-hic are comparing it to the libraries listed below

• dekkerlab / cworld-dekker
  perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)
  ☆65Updated 5 years ago
• nerettilab / RepEnrich2
  RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆39Updated 3 years ago
• ay-lab / dcHiC
  dcHiC: Differential compartment analysis for Hi-C datasets
  ☆68Updated last year
• XiaoTaoWang / NeoLoopFinder
  A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes
  ☆64Updated last year
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆46Updated 6 years ago
• tariks / peakachu
  Genome-wide contact analysis using sklearn
  ☆64Updated last year
• ren-lab / hic-pipeline
  ☆24Updated 3 years ago
• dozmorovlab / TADCompare
  Package for analysis and characterization of differential TADs
  ☆24Updated 3 years ago
• dejunlin / hicrep
  Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support
  ☆38Updated last year
• yezhengSTAT / CUTTag_tutorial
  Tutorial Website
  ☆59Updated 4 years 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
• open2c / pairtools
  Extract 3D contacts (.pairs) from sequencing alignments
  ☆111Updated 2 months ago
• XiaoTaoWang / HiCLift
  A fast and efficient tool for converting chromatin interaction data between genome assemblies
  ☆71Updated last year
• CSOgroup / CALDER2
  CALDER is a Hi-C analysis tool that allows: (1) compute chromatin domains from whole chromosome contacts; (2) derive their non-linear hie…
  ☆22Updated last week
• mdozmorov / ChIP-seq_notes
  Notes on ChIP-seq and other-seq-related tools
  ☆26Updated 3 months ago
• kundajelab / idr
  IDR
  ☆31Updated 2 years ago
• 4dn-dcic / hic2cool
  Lightweight converter between hic and cool contact matrices.
  ☆71Updated 9 months ago
• tanlongzhi / dip-c
  Tools to analyze Dip-C (or other 3C/Hi-C) data
  ☆64Updated 5 months ago
• Xinglab / espresso
  ☆61Updated 8 months ago
• FenyoLab / L1EM
  Estimate locus specific human LINE-1 expression.
  ☆34Updated 2 years ago
• ENCODE-DCC / hic-pipeline
  HiC uniform processing pipeline
  ☆59Updated last year
• GoekeLab / proActiv
  Estimation of Promoter Activity from RNA-Seq data
  ☆53Updated 3 years ago
• FelixKrueger / SNPsplit
  Allele-specific alignment sorting
  ☆55Updated 2 years ago
• dekkerlab / crane-nature-2015
  code associated with crane-nature-2015, 10.1038/nature14450
  ☆34Updated 9 years ago
• parklab / HiNT
  HiC for copy Number variation and Translocation detection
  ☆38Updated 3 years ago
• NYU-BFX / hic-bench
  A set of pipelines for Hi-C and ChIP-Seq analysis.
  ☆46Updated last year
• nloyfer / UXM_deconv
  ☆43Updated 2 years ago
• ygidtu / trackplot
  trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…
  ☆89Updated 3 weeks ago
• hms-dbmi / 3d-genome-processing-tutorial
  A 3D genome data processing tutorial for ISMB/ECCB 2017
  ☆50Updated 7 years ago
• sandberg-lab / Smart-seq3
  Code and analysis pipeline for Smart-seq3 (Hagemann-Jensen et al. 2020).
  ☆52Updated 3 years ago