query_molecule_value | R Documentation |
Get Molecule or Signature Data Values from Dense (Genomic) Matrix Dataset of UCSC Xena Data Hubs
query_molecule_value(dataset, molecule, host = NULL)
dataset |
a UCSC Xena dataset in dense matrix format (rows are features (e.g., gene, cell line) and columns are samples). |
molecule |
a molecular identifier (e.g., "TP53") or a formula specifying
genomic signature ( |
host |
a UCSC Xena host, default is |
a named vector.
# What does dense matrix mean? table(UCSCXenaTools::XenaData$Type) # It is a the UCSC Xena dataset with "Type" equals to "genomicMatrix" ## Not run: dataset <- "ccle/CCLE_copynumber_byGene_2013-12-03" x <- query_molecule_value(dataset, "TP53") head(x) signature <- "TP53 + 2*KRAS - 1.3*PTEN" # a space must exist in the string y <- query_molecule_value(dataset, signature) head(y) ## End(Not run)
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