dataExampleLung: Data Object Files for Running Vignette

In aet21/EpiSCORE: Epigenetic cell-type deconvolution with Single-Cell Omic References

Data Object Files for Running Vignette

Description

Contains data objects for the simulated dataset and true mixing fractions, the processed lung squamous cell carcinoma DNAm TCGA dataset, summarized at the gene promoter level, associated phenotype information and the lists of lung-cancer associated DMCTs.

Usage

data(dataExampleLung)

Format

Contains a number of R-objects for running the example in the vignette

Details

Upon loading the data object, we find the following:

• avSIM.m: 100 simulated DNAm mixtures with DNAm values summarized at the gene promoter level.

• trueW.m: true mixing fractions for the 100 mixtures.

• avLUSCtss.m: the TCGA LUSC DNAm dataset of 316 samples, summarized at the gene-promoter level.

• phenoLUSC.lv: list of phenotype values for the TCGA dataset.

References

Teschendorff AE, Zhu T, Breeze CE, Beck S. Cell-type deconvolution of bulk tissue DNA methylomes from single-cell RNA-Seq data Genome Biol.2020

aet21/EpiSCORE documentation built on June 26, 2022, 5:50 p.m.