getDifferences {FourCSeq} | R Documentation |
getDifferences
detects differences in the interaction frequencies between
different conditions. For each viewpoint all possible combinations of
conditions are tested using the DESeq2
package.
getDifferences(object, referenceCondition = NULL, fitNormFactors = TRUE)
object |
A |
referenceCondition |
Reference condition to be used for testing. |
fitNormFactors |
Defines if the distance dependency should be used to
estimate normalizationFactors. Default is |
Returns an updated FourC
object that contains the results and
information from the differential testing. Normalization factors
are added to the assays slot.
Felix A. Klein, felix.klein@embl.de
FourC
, getZScores
,
estimateDispersions
,
nbinomWaldTest
data(fcf, package="FourCSeq") fcf <- getDifferences(fcf, referenceCondition="WE_68h") results <- getAllResults(fcf) results