contact-matrix

There are 1 repository under contact-matrix topic.

• open2c / cooler

  A cool place to store your Hi-C

  contact-matrixhdf5pythonsparsegenomicshi-cbioinformaticsfile-formatcooler3d-genomechromatinngs
  Language:Python 224
• coolpuppy

  open2c / coolpuppy

  A versatile tool to perform pile-up analysis on Hi-C data in .cool format.

  hi-cpileupcontact-matrixgenomicssparse-matrixbioinformaticspython
  Language:Python 80

• XiaoTaoWang / HiCPeaks

  A Python implementation for BH-FDR and HiCCUPS

  pythonhi-cchromatinpeaksloopscontact-matrixbioinformaticsgenomicscooler
  Language:Python 47

• XiaoTaoWang / TADLib

  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains

  pythonhi-ctadtadsbioinformaticsgenomicschromatincontact-matrixcooler
  Language:Python 41

• kundajelab / genomedisco

  Software for comparing contact maps from HiC, CaptureC and other 3D genome data.

  bioinformaticsbioinformatics-pipelinehi-chiccontact-matrix3d-genome3ccapture-c
  Language:Jupyter Notebook 26

• XiaoTaoWang / StripeCaller

  A toolkit for analyzing architectural stripes

  hi-ccoolercontact-matrixstripes
  Language:Python 20

• epiverse-trace / tutorials-late

  Tutorials to learn accessing and analyzing social contact matrices, scenario modelling to simulate disease spread and investigate interventions, and modelling disease burden.

  carpentries-workbenchepiverseinfectious-disease-dynamicsoutbreak-analysisrstatsscenario-modellingburden-of-diseasenon-pharmaceutical-interventionsvaccinationcontact-matricescontact-matrix
  Language:R 2
• espicc-somaliland-digaale-survey-2019

  kevinvzandvoort / espicc-somaliland-digaale-survey-2019

  Data and code accompanying the paper "Social contacts and other risk factors for respiratory infections among internally displaced people in Somaliland".

  contact-matrixinternally-displaced-peoplehumanitarian-healthpneumoniasomaliland
  Language:R 2

• KnowledgeEdgeAI / PETs_for_Public_Health_Challenge

  A Privacy Enhanced Tool for predicting hotspot areas during pandemic, analyzing consumption trends and estimating contact matrix.

  contact-matrixhotspot-detectionopendpcase-prediction
  Language:Jupyter Notebook 2

• ribanez / CM_AE

  AutoEncoder to compress contact-map information

  autoencoderpytorchdeeplearningcontact-matrixconvolutional-neural-networks
  Language:Python 0

• Siegel-Lab / libBioSmoother

  On-the-fly processing and visualization of interactome data.

  data-visualizationhi-cinteractome-sequencingradicl-seqbioinformaticsgrid-seqcontact-matrix
  Language:C++ 0