Alternatives and similar repositories for higlass-python:

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

• nvictus / pybbi
  Python bindings to UCSC BigWig and BigBed library
  ☆32Updated 2 months ago
• 4dn-dcic / hic2cool
  Lightweight converter between hic and cool contact matrices.
  ☆69Updated 8 months ago
• open2c / quaich
  snakemake pipeline for Hi-C post-processing
  ☆22Updated 9 months ago
• 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 last week
• ay-lab / dcHiC
  dcHiC: Differential compartment analysis for Hi-C datasets
  ☆68Updated last year
• higlass / higlass-docker
  Builds a docker container wrapping higlass-server and higlass-client in nginx
  ☆32Updated 2 years ago
• cmdoret / hicreppy
  Python reimplementation of hicrep with compatibility for sparse matrices
  ☆17Updated 2 years ago
• manzt / pygv
  a minimal, scriptable genome browser for python
  ☆50Updated 3 months ago
• aertslab / pycistarget
  pycistarget is a python module to perform motif enrichment analysis in sets of regions with different tools and identify high confidence …
  ☆17Updated 2 months ago
• ysora / stripenn
  Architectural stripe detection from 3D genome conformation data
  ☆17Updated last year
• tariks / peakachu
  Genome-wide contact analysis using sklearn
  ☆64Updated last year
• billgreenwald / pgltools
  Paired Genomic Loci Tool Suite
  ☆30Updated 2 years ago
• igvteam / igv-notebook
  Module for embedding igv.js in an IPython notebook
  ☆74Updated 2 months ago
• open2c / coolpuppy
  A versatile tool to perform pile-up analysis on Hi-C data in .cool format.
  ☆79Updated 5 months ago
• open2c / pairtools
  Extract 3D contacts (.pairs) from sequencing alignments
  ☆110Updated 2 months ago
• jrderuiter / pybiomart
  A simple pythonic interface to biomart.
  ☆55Updated 5 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
• phageghost / python-genome-browser
  Tools for making plots of genomic datasets in a genome-browser-like format
  ☆31Updated 4 months ago
• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆41Updated 2 years ago
• scverse / mudata
  Multimodal Data (.h5mu) implementation for Python
  ☆92Updated 3 weeks ago
• mortazavilab / swan_vis
  A Python library to visualize and analyze long-read transcriptomes
  ☆61Updated last year
• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆27Updated last year
• b2jia / jie
  A spatial genome aligner for analyzing multiplexed DNA-FISH imaging data.
  ☆18Updated last year
• paulsengroup / hictkpy
  Python bindings for hictk: read and write .cool and .hic files directly from Python
  ☆14Updated this week
• open2c / looplib
  A library to analyse the structure of 1d loops and simulate loop extrusion by loop extruding factors.
  ☆10Updated 2 months ago
• pkerpedjiev / negspy
  Python NGS Repository
  ☆9Updated 8 months ago
• 3DGenomes / TADbit
  TADbit is a complete Python library to deal with all steps to analyze, model and explore 3C-based data. With TADbit the user can map FAST…
  ☆101Updated 3 months ago
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆46Updated 6 years ago
• Marsilea-viz / legendkit
  Legend made easy for matplotlib
  ☆27Updated 2 months ago
• gerlichlab / hicognition
  A visual exploration and hypothesis testing tool for 3D genomics
  ☆13Updated last year