pmartR (version 2.4.6)

summary.imdanovaFilt: IMD-ANOVA Filter Summary

Description

Provide summary of a imdanovaFilt S3 object

Usage

# S3 method for imdanovaFilt
summary(
  object,
  min_nonmiss_anova = NULL,
  min_nonmiss_gtest = NULL,
  comparisons = NULL,
  ...
)

Value

If min_nonmiss_gtest or min_nonmiss_anova is specified, the number of biomolecules to be filtered with the specified threshold are reported.

Arguments

object

S3 object of class 'imdanovaFilt' created by imdanova_filter.

min_nonmiss_anova

integer value specifying the minimum number of non-missing feature values allowed per group for anova_filter. Defaults to NULL. Suggested value is 2.

min_nonmiss_gtest

integer value specifying the minimum number of non-missing feature values allowed per group for gtest_filter. Defaults to NULL. Suggested value is 3.

comparisons

data frame with columns for "Control" and "Test" containing the different comparisons of interest. Comparisons will be made between the Test and the corresponding Control (e.g. Control is the reference group).

...

further arguments passed to or from other methods

Author

Lisa Bramer

See Also

imdanova_filter

Examples

if (FALSE) { # requireNamespace("pmartRdata", quietly = TRUE)
library(pmartRdata)
mypep <- group_designation(omicsData = pep_object, main_effects = "Phenotype")
myfilt <- imdanova_filter(omicsData = mypep)
summary(myfilt, min_nonmiss_anova = 2, min_nonmiss_gtest = 3)
}