copynumber

There are 9 repositories under copynumber topic.

  • AntonioDeFalco/SCEVAN

    R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the malignant cells. It also infers the copy number profile of malignant cells, identifies subclonal structures and analyses the specific and shared alterations of each subpopulation.

    Language:HTML93412624

  • CompEpigen/ezASCAT

    Conveniently perform ASCAT copy-number analysis from Tumor-Normal or Tumor only BAM files in R

    Language:R11312

  • AmpliconSuite/AmpliconArchitect

    Identify one or more connected, focally amplified genomic regions to elucidate the architecture of focal amplifications such as ecDNA.

    Language:Python85011

  • PoisonAlien/varscan_accessories

    accessory scripts for processing varscan somatic/copynumber outputs.

    Language:Python83310

  • Bioconductor/RaggedExperiment

    Matrix-like representations of mutation and CN data

    Language:R410273

  • genepattern/AmpliconSuite

    Wraps the AmpliconSuite-pipeline workflow to identify one or more connected genomic regions which have copy number amplifications.

    Language:Python1201

  • ICBI/CINdex

    CINdex Bioconductor package. Read more here: https://www.bioconductor.org/packages/release/bioc/html/CINdex.html

    Language:R1900

  • sebastian-gregoricchio/SPACCa

    Snakemake Pipeline for the Analyses of ChIP-seq data in Cancer samples

    Language:Python0110

  • xwang234/copynumber

    Language:R0200