Alternatives and similar repositories for combinatorialHiC

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

• mdozmorov / scHiC_notes
  Notes on single-cell Hi-C technologies, tools, and data
  ☆86Updated last year
• 4dn-dcic / hic2cool
  Lightweight converter between hic and cool contact matrices.
  ☆74Updated last year
• tanlongzhi / dip-c
  Tools to analyze Dip-C (or other 3C/Hi-C) data
  ☆72Updated last year
• 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
  ☆39Updated last year
• tariks / peakachu
  Genome-wide contact analysis using sklearn
  ☆71Updated last year
• tanjimin / C.Origami
  C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
  ☆82Updated last year
• mdozmorov / ChIP-seq_notes
  Notes on ChIP-seq and other-seq-related tools
  ☆26Updated 4 months ago
• open2c / cooler-binder
  Cooler demo using a Jupyter notebook Binder
  ☆18Updated 5 years ago
• open2c / distiller-nf
  A modular Hi-C mapping pipeline
  ☆100Updated last year
• vaquerizaslab / fanc
  FAN-C: Framework for the ANalysis of C-like data
  ☆120Updated last year
• ma-compbio / Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph
  ☆92Updated last month
• xryanglab / RiboMiner
  a toolset for mining multi-dimensional features of the translatome with ribosome profiling data
  ☆18Updated 4 months ago
• open2c / pairtools
  Extract 3D contacts (.pairs) from sequencing alignments
  ☆120Updated last month
• ay-lab / dcHiC
  dcHiC: Differential compartment analysis for Hi-C datasets
  ☆73Updated last year
• ay-lab / mustache
  Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation
  ☆78Updated 10 months ago
• hms-dbmi / 3d-genome-processing-tutorial
  A 3D genome data processing tutorial for ISMB/ECCB 2017
  ☆52Updated 8 years ago
• ay-lab / fithic
  Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…
  ☆91Updated 3 years ago
• liu-bioinfo-lab / scHiCTools
  a computational tool for analyzing single cell Hi-C data
  ☆26Updated last year
• databio / awesome-atac-analysis
  Links to ATAC-seq analysis tools
  ☆73Updated 4 years ago
• zhoujt1994 / scHiCluster
  ☆69Updated 3 weeks ago
• mlbendall / telescope
  Quantification of transposable element expression using RNA-seq
  ☆76Updated last year
• FenyoLab / L1EM
  Estimate locus specific human LINE-1 expression.
  ☆39Updated last month
• 4dn-dcic / docker-4dn-hic
  Docker for 4DN Hi-C processing pipeline
  ☆60Updated last year
• XiaoTaoWang / EagleC
  A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps
  ☆61Updated 3 months ago
• JinLabBioinfo / DeepLoop
  DeepLoop robustly identifies enhancer-promoter interactions from low-depth and single-cell Hi-C data
  ☆34Updated 8 months ago
• XiaoTaoWang / NeoLoopFinder
  A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes
  ☆75Updated 2 years ago
• AmpliconSuite / AmpliconSuite-pipeline
  A quickstart tool for AmpliconArchitect. Enables all steps (alignment, CNV calling, seed interval detection) prior to running AmpliconArc…
  ☆76Updated last week
• CraigIDent / SpliSER
  Bioinformatic tool for Splice site Strength Estimation using RNA-seq
  ☆20Updated 4 months ago
• CostaLab / reg-gen
  Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.
  ☆112Updated last month