curatedPCaDatasets_icgcca: ICGC CA MAE-object

In Syksy/curatedPCaData: Curated Prostate Cancer Data

ICGC CA MAE-object

Description

MultiAssayExperiment object containing gene expression (gex) and immune cell estimates for the ICGC CA (Canadian) cohort.

Format

An MAE object spanning 213 men with prostate cancer

gex.rma

matrix with 17208 rows and 213 columns, of gene expression data

cibersort

matrix with 22 rows and 213 columns, of cibersort based deconvolution data

xcell

matrix with 39 rows and 213 columns, of xcell based deconvolution data

epic

matrix with 8 rows and 213 columns, of epic based deconvolution data

quantiseq

matrix with 11 rows and 213 columns, of quantiseq based deconvolution data

estimate

data.frame with 4 rows and 213 columns, of cell types based on ESTIMATE method

scores

matrix with 4 rows and 213 columns, of risk scores and AR scores

mcp

matrix with 11 rows and 213 columns, of mcp-counter based deconvolution data

Details

The data refers to samples from the ICGC Canadian Prostate Cancer Genome Network (ICGC-PRAD-CA)

Value

A MultiAssayExperiment corresponding to the study and its available omics.

Source

https://dcc.icgc.org/projects/PRAD-CA

References

(PubMed)

Examples

mae_icgcca <- getPCa('icgcca')

Syksy/curatedPCaData documentation built on Oct. 11, 2024, 7:05 a.m.