Alternatives and similar repositories for higlass-docker:

Users that are interested in higlass-docker are comparing it to the libraries listed below

• higlass / clodius
  Clodius is a tool for breaking up large data sets into smaller tiles that can subsequently be displayed using an appropriate viewer.
  ☆39Updated 4 months ago
• ay-lab / dcHiC
  dcHiC: Differential compartment analysis for Hi-C datasets
  ☆64Updated last year
• 4dn-dcic / hic2cool
  Lightweight converter between hic and cool contact matrices.
  ☆67Updated 6 months ago
• meuleman / epilogos
  Methods for summarizing and visualizing multi-biosample functional genomic annotations
  ☆43Updated last year
• nvictus / pybbi
  Python bindings to UCSC BigWig and BigBed library
  ☆32Updated last month
• open2c / quaich
  snakemake pipeline for Hi-C post-processing
  ☆22Updated 6 months ago
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆46Updated 5 years ago
• parklab / HiNT
  HiC for copy Number variation and Translocation detection
  ☆36Updated 3 years ago
• ysora / stripenn
  Architectural stripe detection from 3D genome conformation data
  ☆17Updated last year
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆79Updated 11 months ago
• open2c / pairtools
  Extract 3D contacts (.pairs) from sequencing alignments
  ☆106Updated this week
• XiaoTaoWang / NeoLoopFinder
  A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes
  ☆59Updated last year
• tariks / peakachu
  Genome-wide contact analysis using sklearn
  ☆60Updated 9 months ago
• kundajelab / idr
  IDR
  ☆31Updated last year
• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆40Updated 2 years ago
• XiaoTaoWang / HiCLift
  A fast and efficient tool for converting chromatin interaction data between genome assemblies
  ☆69Updated last year
• mortazavilab / swan_vis
  A Python library to visualize and analyze long-read transcriptomes
  ☆58Updated 10 months ago
• higlass / higlass-python
  Python bindings to and Jupyter Notebook+Lab integration for the HiGlass viewer
  ☆54Updated this week
• gagneurlab / absplice
  ☆33Updated 4 months ago
• open2c / distiller-nf
  A modular Hi-C mapping pipeline
  ☆88Updated last month
• deeptools / HiCMatrix
  ☆11Updated 8 months ago
• broadinstitute / longbow
  Annotation and segmentation of MAS-seq data
  ☆20Updated last year
• dozmorovlab / excluderanges
  Genomic coordinates of problematic genomic regions as GRanges
  ☆32Updated last month
• lh3 / hickit
  TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C
  ☆108Updated 3 years ago
• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆26Updated last year
• GuttmanLab / sprite-pipeline
  A self-contained repository of all code needed for SPRITE analysis
  ☆20Updated 3 years ago
• ay-lab / mustache
  Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation
  ☆65Updated last month
• BD2KGenomics / toil-rnaseq
  UC Santa Cruz Computational Genomics Lab's Toil-based RNA-seq pipeline
  ☆40Updated 4 years ago
• vierstralab / genome-tools
  Processing and plotting tools for genomics data
  ☆20Updated 2 months ago
• dekkerlab / crane-nature-2015
  code associated with crane-nature-2015, 10.1038/nature14450
  ☆34Updated 9 years ago