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@wtsi-hpag

wtsi-hpag

Software tools and pipelines developed by the High Performance Algorithms Group @ the Wellcome Sanger Institute

Popular repositories

  1. scanPAV scanPAV Public

    Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.

    C 29 7

  2. Scaff10X Scaff10X Public

    Pipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads

    C 20 4

  3. scaffHiC scaffHiC Public

    Pipeline for genome scaffolding by modelling distributions of HiC pairs

    C 10 1

  4. smis smis Public

    Forked from fg6/smis

    SMIS: Single Molecular Integrative Scaffolding. A pipeline for scaffolding genome assemblies using long reads (PacBio, ONT)

    C 4 1

  5. caus caus Public

    CAUS is a pipeline for Chromosome Assignment Using Synteny

    C 4

  6. HiLine HiLine Public

    HiC alignment and classification pipeline

    Python 4

Repositories

Showing 10 of 22 repositories
  • CoverageWorkshop Public

    A Workshop Notebook used for running a session as part of the OpenLab series.

    Jupyter Notebook 0 1 0 0 Updated Feb 12, 2024
  • stepStone Public

    A pipeline for identification of chromothripsis breakpoints and cancer rearrangements

    C 0 MIT 0 0 0 Updated Dec 22, 2023
  • Deforest Public

    A Bayesian method to smooth-out the noise in a coverage dataset, revealing the underlying average behaviour which is constrained to lie on `Harmonics' of a fundamental coverage value.

    C++ 0 GPL-3.0 0 11 0 Updated Dec 13, 2023
  • HypoCoverage Public

    Coverage Analysis Tools

    C++ 0 0 0 0 Updated Jul 10, 2023
  • MCSampler Public

    An MCMC Sampling framework for sampling from arbitrary probability densities.

    C++ 0 0 0 0 Updated Jan 18, 2023
  • scaffHiC Public

    Pipeline for genome scaffolding by modelling distributions of HiC pairs

    C 10 MIT 1 3 0 Updated Dec 7, 2022
  • HypothesisTester Public

    A Bayesian Statistical Inference framework for comparing hypotheses

    C++ 0 0 0 0 Updated Oct 18, 2022
  • ContactPointAnalysis Public

    A statistical tool for analysing the Contact Point hypothesis for Chromothripsis

    C++ 0 0 0 0 Updated Aug 26, 2022
  • Scaff10X Public

    Pipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads

    C 20 MIT 4 24 3 Updated Aug 2, 2022
  • chromoSPA Public

    A Size and Positional Analysis (SPA) tool for studying chromothripsis breakages.

    C++ 0 MIT 0 0 0 Updated Jun 28, 2022
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