Description Usage Arguments Examples
Call QUADrATiC with a query gene signature
1 2 3 |
query.gene.sig |
A data frame containing one column of probe IDs and a second with values of 1 where up-regulated and -1 where down-regulated. |
analysis.set |
Define how reference profiles are grouped into reference sets in QUADrATiC. Valid values are Drug_Name, Drug_Name+Cell_Line, Drug_Name+Cell_Line+Time, Drug_Name+Conc+Cell_Line and Drug_Name+Conc+Cell_Line+Time. Default is Drug_Name. |
num.rand.sigs |
The number of random signatures generated to estimate p-value. Default is 2000. |
endpoint |
The URL for QUADrATiC. Default is http://localhost:8090. This can also be set globally by setting the option 'quadratic.endpoint'. |
1 2 | estrogen.signature <- read.table('data/Estrogen.tsv', stringsAsFactors = F)
analyze(estrogen.signature)
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