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@CMUSchwartzLab

CMUSchwartzLab

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  1. cancer-phylogenetics-prognostic-prediction cancer-phylogenetics-prognostic-prediction Public

    Improving Personalized Prediction of Cancer Prognoses with Clonal Evolution Models

    Python 23 4

  2. TUSV-ext TUSV-ext Public

    Python 22 5

  3. RAD RAD Public

    Robust and Accurate Deconvolution

    Jupyter Notebook 13 3

  4. RADs RADs Public

    Jupyter Notebook 11 2

  5. FISH_deconvolution FISH_deconvolution Public

    code implementing methods for pooling bulk and single cell data and FISH data for copy number deconvolution

    Python 10 1

  6. NND NND Public

    Neural network deconvolution

    Jupyter Notebook 8 1

Repositories

Showing 10 of 16 repositories
  • Mase-phi Public

    Marker selection strategies for ctDNA guided by phylogenetic inference

    Python 1 MIT 1 0 0 Updated Jan 31, 2025
  • TUSV-INT Public
    Python 0 0 0 0 Updated Jan 29, 2025
  • TUSV-ext Public
    Python 22 MIT 5 1 0 Updated Jan 24, 2025
  • Sc-TUSV-ext Public

    Sc-TUSV-ext: Tumor evolutionary tree reconstruction from single-cell DNA-seq data of single nucleotide variants (SNV), copy number alterations (CNA) and structural variants (SV).

    Python 2 0 0 0 Updated Nov 21, 2024
  • StudyDesignOptimization Public
    Jupyter Notebook 0 0 0 0 Updated Oct 21, 2024
  • MosaicSim Public
    Jupyter Notebook 5 MIT 1 1 0 Updated Sep 6, 2023
  • SimGenome Public

    Simulation of the somatic variations (structural variations, copy number variations and single nucleotide variations) in whole genome based on tumor phylogenetic trees. SimGenome is the simulation method used in TUSV-ext project.

    Python 2 0 0 0 Updated Jun 19, 2023
  • ConTreeDP Public

    Consensus method for tumor history tree based on directed partitions using dynamic programming

    Python 5 CC0-1.0 0 0 0 Updated Oct 24, 2022
  • RADs Public
    Jupyter Notebook 11 2 0 0 Updated Mar 13, 2022
  • JointClustering Public

    The joint clustering method for single cell miFISH and single cell whole genome copy numbers

    Python 4 CC0-1.0 0 0 0 Updated Nov 18, 2021
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