In kstawiski/OmicSelector: OmicSelector - a package for biomarker selection based on high-throughput experiments.

Whole dataset:

suppressMessages(library(OmicSelector))
dane = data.table::fread("data_start.csv")
x = dplyr::select(dane, starts_with("hsa"))
DE = OmicSelector_differential_expression_ttest(x, classes = dane$Class,)
data.table::fwrite(DE, "DE_wholedataset.csv")
OmicSelector_table(DE)

Training set only:

suppressMessages(library(OmicSelector))
dane = data.table::fread("mixed_train.csv")
x = dplyr::select(dane, starts_with("hsa"))
DE = OmicSelector_differential_expression_ttest(x, classes = dane$Class,)
data.table::fwrite(DE, "DE.csv")
OmicSelector_table(DE)

kstawiski/OmicSelector documentation built on April 10, 2024, 11:11 p.m.