cancer-evolution

There are 18 repositories under cancer-evolution topic.

  • caravagnalab/revolver

    REVOLVER - Repeated Evolution in Cancer

    Language:R6574025

  • keyuan/ccube

    Bayesian mixture models for estimating and clustering cancer cell fractions

    Language:R24458

  • reiterlab/ctdna

    Python package for cancer early detection based on a model of cancer evolution and circulating tumor DNA (ctDNA) shedding

    Language:Python10305

  • nf-core/tumourevo

    Analysis pipleine to model tumour clonal evolution from WGS data (driver annotation, quality control of copy number calls, subclonal and mutational signature deconvolution)

    811113

  • rdiaz02/what_genotype_next

    Code for "Conditional prediction of consecutive tumor evolution using cancer progression models: What genotype comes next?", J.Diaz-Colunga, R.Diaz-Uriarte: https://doi.org/10.1371/journal.pcbi.1009055

    Language:R7210

  • BIMIB-DISCo/J-Space.jl

    J-SPACE is a Julia package to simulate the spatial growth and the genomic evolution of a cell population and the experiment of sequencing the genome of the sampled cells.

    Language:Julia6631

  • caravagn/evoverse.datasets

    Datasets and analysis results released with the REVOLVER package for Cancer Evolution.

    Language:R5200

  • caravagnalab/ctree

    Clone trees for Cancer Evolution studies from bulk sequencing data.

    Language:R5322

  • aleighbrown/pwgs_snakemake

    Snakemake pipeline for running PhyloWGS on NIH Biowulf Cluster

    Language:Python4124

  • caravagn/evoverse

    The evoverse is a package to implement cancer evolution analysis on multi-sample cancer sequecing data.

    Language:HTML3242

  • cbg-ethz/pMHN

    Personalised mutual hazard networks: fixed effects in cancer progression modeling

    Language:Python3180

  • TomMakesThings/Cancer-Evolution

    Estimates the clonal population structure in a tumour sample given a cell mutation matrix

    Language:Jupyter Notebook3100

  • cancersysbio/BreastCancerITH

    Language:Python22102
  • mtree

    caravagn/mtree

    Mutation tree from binary bulk sequencing data

    Language:R220

  • FrancisCrickInstitute/tumour-growth-patterns-impact-evolution

    Agent-based modelling reveals the impact of growth patterns on spatial and temporal features of clonal diversification. A GitHub repository of the Source Code for the model and Source Data for the figures of the paper.

    Language:Cuda2302

  • iamfuxiao/tumour-growth-patterns-impact-evolution

    Agent-based modelling reveals the impact of growth patterns on spatial and temporal features of clonal diversification. A GitHub repository of the Source Code for the model and Source Data for the figures of the paper.

    Language:Jupyter Notebook2102

  • mirnylab/pdSim

    Gillespie simulations of advantageous drivers & deleterious passengers in cancer

    Language:C0500

  • caravagn/mobster_supp_data

    Supplementary Data released with Caravagna et al. Subclonal reconstruction of tumors by using machine learning and population genetics. Nature Genetics volume 52, 898–907(2020).

    Language:HTML122