curatedPCaDatasets_tcga | R Documentation |
MultiAssayExperiment object containing gene expression (gex), copy number alteration (cna), mutations and immune cell estimates from GDC TCGA.
An MAE object spanning 369 men with prostate cancer
matrix with 23151 rows and 492 columns, from GISTIC discretized copy number alteration calls
matrix with 19658 rows and 461 columns, of gene expression data
RaggedExperiment with 30897 rows and 495 columns, of mutation data
matrix with 22 rows and 550 columns, of cibersort based deconvolution data
matrix with 39 rows and 461 columns, of xcell based deconvolution data
matrix with 8 rows and 461 columns, of epic based deconvolution data
matrix with 11 rows and 461 columns, of quantiseq based deconvolution data
matrix with 11 rows and 461 columns, of mcp-counter based deconvolution data
data.frame with 4 rows and 461 columns, of cell types based on ESTIMATE method
matrix with 4 rows and 416 columns, of risk scores and AR scores
TCGA data was obtained from the latest GDC's XenaBrowser release.
A MultiAssayExperiment corresponding to the study and its available omics.
https://xenabrowser.net/datapages/?cohort=GDC%20TCGA%20Prostate%20Cancer%20(PRAD)
(PubMed)
mae_tcga <- getPCa('tcga')
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