fc.pos: fc.pos

In DDPNA: Disease-Drived Differential Proteins Co-Expression Network Analysis

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 "none","log2".
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]

DDPNA documentation built on May 17, 2022, 5:05 p.m.