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@bioDS

Biological Data Science Collaboratory

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  1. phyloRNAanalysis phyloRNAanalysis Public

    A phylogenetic analysis from scRNA-seq data using both expression levels and identified SNVs

    R 8 1

  2. beast-phylonco beast-phylonco Public

    A BEAST2 package for single-cell cancer evolution

    Java 7 2

  3. phyloRNA phyloRNA Public

    A package to facilitate a phylogenetic analysis of scRNAseq data

    R 7 1

  4. Pint Pint Public

    Fast interactions lasso for sparse data

    C 6

  5. treeOclock treeOclock Public

    Implementation of algorithms in the RNNI space, e.g. FINDPATH

    C 3 1

  6. tetres tetres Public

    Package for discrete time trees

    Python 3

Repositories

Showing 10 of 29 repositories
  • beast-phylonco Public

    A BEAST2 package for single-cell cancer evolution

    bioDS/beast-phylonco’s past year of commit activity
    Java 7 LGPL-2.1 2 18 0 Updated Feb 25, 2025
  • Centroid-Code Public

    This repository contains a Python implementation of the Centroid algorithm and a script to generate simulated datasets.

    bioDS/Centroid-Code’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Feb 24, 2025
  • lab Public

    Biological Data Science Lab website

    bioDS/lab’s past year of commit activity
    HTML 0 0 1 0 Updated Feb 20, 2025
  • fossilsim Public Forked from fossilsim/fossilsim

    R package for simulating fossil data on phylogenetic trees under mechanistic models of preservation and sampling

    bioDS/fossilsim’s past year of commit activity
    HTML 1 2 0 0 Updated Dec 13, 2024
  • TreeSim Public Forked from cran/TreeSim

    TreeSim — Simulating Phylogenetic Trees

    bioDS/TreeSim’s past year of commit activity
    R 1 1 0 0 Updated Dec 12, 2024
  • KAN-for-Binary-Phenotype-Classification Public
    bioDS/KAN-for-Binary-Phenotype-Classification’s past year of commit activity
    TeX 0 0 0 0 Updated Nov 23, 2024
  • FBD-dLTTs Public

    Simulations for identifiability paper

    bioDS/FBD-dLTTs’s past year of commit activity
    R 0 0 0 0 Updated Aug 28, 2024
  • vcf2fasta Public
    bioDS/vcf2fasta’s past year of commit activity
    Python 2 0 1 0 Updated Aug 13, 2024
  • VSTExprPhylo Public

    Scripts and analyses in Visium Spatial Transcriptomics phylogenetic analyses paper

    bioDS/VSTExprPhylo’s past year of commit activity
    R 0 0 0 0 Updated Jun 12, 2024
  • tetres Public

    Package for discrete time trees

    bioDS/tetres’s past year of commit activity
    Python 3 MIT 0 1 0 Updated Apr 11, 2024
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