Alternatives and similar repositories for hic-pipeline:

Users that are interested in hic-pipeline are comparing it to the libraries listed below

• shawnzhangyx / cvdc_scripts
  scripts for analyzing the CVDC data.
  ☆17Updated 5 years ago
• Tian-Dechao / diffDomain
  DiffDomain is a statistically sound method for detecting differential TADs between conditions
  ☆18Updated 5 months ago
• ay-lab / ATACProc
  ATAC-seq processing pipeline
  ☆32Updated 2 years ago
• tariks / peakachu
  Genome-wide contact analysis using sklearn
  ☆64Updated last year
• dozmorovlab / TADCompare
  Package for analysis and characterization of differential TADs
  ☆23Updated 2 years ago
• stjude / ROSE
  ROSE: RANK ORDERING OF SUPER-ENHANCERS
  ☆45Updated 8 months ago
• yezhengSTAT / CUTTag_tutorial
  Tutorial Website
  ☆57Updated 4 years ago
• mcgilldinglab / MATES
  A Deep Learning-Based Model for Quantifying Transposable Elements in Single-Cell Sequencing Data
  ☆22Updated 2 months ago
• 3UTR / DaPars2
  Dynamics analysis of Alternative PolyAdenylation from RNA-seq
  ☆56Updated last year
• dekkerlab / cworld-dekker
  perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)
  ☆66Updated 5 years ago
• JinLabBioinfo / HiCorr
  HiCorr: a Hi-C data bias-correction pipeline
  ☆28Updated this week
• parklab / HiNT
  HiC for copy Number variation and Translocation detection
  ☆37Updated 3 years ago
• XiaoTaoWang / HiCLift
  A fast and efficient tool for converting chromatin interaction data between genome assemblies
  ☆70Updated last year
• dekkerlab / crane-nature-2015
  code associated with crane-nature-2015, 10.1038/nature14450
  ☆34Updated 9 years ago
• olarerin / metaPlotR
  A Perl/R pipeline for plotting metagenes
  ☆37Updated 3 years ago
• dejunlin / hicrep
  Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support
  ☆37Updated last year
• GuttmanLab / sprite-pipeline
  A self-contained repository of all code needed for SPRITE analysis
  ☆20Updated 3 years ago
• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆41Updated 2 years ago
• XiaoTaoWang / NeoLoopFinder
  A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes
  ☆63Updated last year
• shizhuoxing / scISA-Tools
  single-cell-Isoform-Sequencing-Analysis-Tools: New and powerful tools brings single-cell RNA sequencing to the Isoform level and single m…
  ☆24Updated 8 months ago
• XiaoTaoWang / HiCPeaks
  A Python implementation for BH-FDR and HiCCUPS
  ☆46Updated 4 months ago
• tanlongzhi / dip-c
  Tools to analyze Dip-C (or other 3C/Hi-C) data
  ☆63Updated 4 months ago
• 3UTR / 3aQTL-pipe
  Mapping 3′UTR alternative polyadenylation quantitative trait loci through population-scale transcriptomic and genomic data
  ☆11Updated 2 years ago
• WRui / Post_Implantation
  ☆27Updated 3 years ago
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆46Updated 5 years ago
• NYU-BFX / hic-bench
  A set of pipelines for Hi-C and ChIP-Seq analysis.
  ☆46Updated 11 months ago
• databio / awesome-atac-analysis
  Links to ATAC-seq analysis tools
  ☆65Updated 3 years ago
• XiaoTaoWang / EagleC
  A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps
  ☆58Updated last year
• dovetail-genomics / Micro-C
  Micro-C QC and data analysis
  ☆15Updated last year
• zhongmicai / Hic_tools_collection
  ☆11Updated 5 years ago