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CaSpER

CNV identification and visualization by integrative analysis of single-cell or bulk RNA-seq data.

Package 87 stars GitHub

CaSpER is published in Nature Communications: https://www.nature.com/articles/s41467-019-13779-x

CaSpER documentation is here: RMD file.

BAFExtract code is available here.

Tutorials

  1. Yale meningioma Bulk RNA-Seq dataset R code

  2. TCGA-GBM Bulk RNA-Seq dataset R code

  3. TCGA-BRCA Bulk RNA-Seq dataset
    R code

  4. GBM Single-cell RNA-Seq dataset R code

  5. 10x Single-cell RNA-Seq dataset R code

Each run generally takes about 5-30 minutes.

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