CalcHalflifeDeviation {bridger2}

Calculate RNA half-life SD.

Description

BridgeRHalfLifeCalcR2Select calculates RPKM SD and RNA half-life SD for each gene.

Usage

CalcHalflifeDeviation(inputFile, rawFile, group = c("CTRL_PUM1", "CTRL_PUM2",
  "CTRL_DKD"), hour = c(0, 1, 2, 4, 8, 12), save = T, figSave = F,
  inforColumn = 4, outputPrefix = "BridgeR_7")

Arguments

inputFile

The dataframe of halflife table.

rawFile

The dataframe of RPKM table.

group

The vector of group names.

hour

The vector of time course about BRIC-seq experiment.

save

Whether to save the output matrix file.

figSave

Whether to save the output fig file.

inforColumn

The number of information columns.

outputPrefix

The prefix for the name of the output.

Value

data.table object about RNA half-life SD.

Examples

group <- c("Control", "Knockdown")
hour <- c(0, 1, 2, 4, 8, 12)
half_sd_table <- CalcHalflifeDeviation(halflife_table,
                                       RNA_halflife_grubbs_test,
                                       group = c("CTRL_1",
                                                 "CTRL_2",
                                                 "CTRL_3"),
                                       save = FALSE)