MD-Anderson-Bioinformatics / NGCHMDemoData

Demo Data for NGCHM R package.

NGCHM Demo Data

This package contains demonstration data for the NGCHM-R package. Loading the NGCHMDemoData package makes the data available in the R session.

Installation

This package can be installed from the MD-Anderson-Bioinformatics R-Universe repository.

install.packages("NGCHMDemoData", repos = c("https://md-anderson-bioinformatics.r-universe.dev", "https://cran.r-project.org"))

Details

This data was obtained from the MBatch Omic Browser. In order to create a data set small enough for demonstration purposes the expression data was filtered to remove genes with low expression and variance, and only 200 randomly selected samples were used.

• TCGA.BRCA.ExpressionData MBatch Omic Browser information:
  • Source: GDC
  • Category: Gene Expression Quantification
  • Platform: HTSeq - Counts
  • Version: 2020_12_22_1000
• TCGA.BRCA.TP53MutationData MBatch Omic Browser information:
  • Source: GDC
  • Category: Masked Somatic Mutation
  • Platform: SomaticSniper Variant Aggregation and Masking
  • Version: 2020_12_22_1000