runDESeq {debrowser} | R Documentation |
Run DESeq2 algorithm on the selected conditions. Output is to be used for the interactive display.
runDESeq(data, columns, conds, fitType = c("parametric", "local", "mean"), non_expressed_cutoff = 10)
data, |
A matrix that includes all the expression raw counts, rownames has to be the gene, isoform or region names/IDs |
columns, |
is a vector that includes the columns that are going to be analyzed. These columns has to match with the given data. |
conds, |
experimental conditions. The order has to match with the column order |
fitType, |
DESeq2 fitType, it can be 'parametric', 'local', 'mean'. |
non_expressed_cutoff, |
to remove unexpressed regions/genes/isoforms this cutoff is used |
deseq2 results
x <- runDESeq(data<-NULL, columns<-c())