This function returns an imdanovaFilt object for use with
applyFilt
imdanova_filter(omicsData)object of one of the classes "pepData", "isobaricpepData",
"proData", "lipidData", "metabData", or "nmrData", created by
as.pepData, as.isobaricpepData,
as.proData, as.lipidData,
as.metabData, or as.nmrData, respectively.
Groups (more than one) must have been specified using the
group_designation function prior to using the imdanova_filter
function.
An S3 object of class imdanovaFilt (also a data.frame) containing the molecule identifier and number of samples in each group with non-missing values for that molecule.
The output from this function can be used in conjunction with
applyFilt to filter out molecules that are not present in
enough samples to do statistical comparisons. If any singleton groups are
present in the omicsData object, those groups are not part of the filter
object that is returned.
library(pmartRdata)
mypep <- group_designation(omicsData = pep_object, main_effects = "Phenotype")
to_filter <- imdanova_filter(omicsData = mypep)
summary(to_filter, min_nonmiss_anova = 2)