fc.pos {DDPNA} | R Documentation |
fc.pos
Description
Pick up proteins based on foldchange and return proteins position in data.
Usage
fc.pos(fc, vs.set2, vs.set1 = "WT",
cutoff = 1, datatype = c("none", "log2"),
fctype = "all", order = TRUE)
Arguments
fc |
proteomic data of mean value in groups. |
vs.set2 |
compared group 2 name |
vs.set1 |
compared group 1 name |
cutoff |
a numberic value indicated foldchange threshold. |
datatype |
The quantification data is normal data or log2 data.
This must be (an abbreviation of) one of the strings " |
fctype |
foldchange is ordered by up-regulated or down-regulated or changed |
order |
a logical value indicated that whether ordered by foldchange. |
Author(s)
Kefu Liu
Examples
data(imputedData)
data <- imputedData
relative <- data$relative_value
rownames(relative) <- data$inf$ori.ID
group <- gsub("[0-9]+", "", colnames(relative))
datamean <- groupmean(relative, group, name = FALSE)
fc_1vs2 <- fc.pos(datamean, vs.set2 = "ad", vs.set1 = "ctl",
cutoff = 1, datatype = "none",
fctype = "up", order = TRUE)
fc_ID <- rownames(relative)[fc_1vs2]
[Package DDPNA version 0.3.3 Index]