scsR (version 1.8.0)

launch_RSA: launch_RSA

Description

launch RSA sorting method

Usage

launch_RSA(df, LB=-100, UB=100, reverse=FALSE, strScoreCol="", strGeneCol="Gene_ID", keepAllRSAReturnFields=FALSE)

Arguments

df

data frame containing the results of the siRNA experiment.

LB

RSA lower bound (look KONIG paper). (number)

UB

RSA upper bound (look KONIG paper). (number)

reverse

whether to sort in ascending or descending order. (boolean)

strScoreCol

name of the column that contains the score of the screen (character vector)

strGeneCol

name of the column that contains the names of the genes in the screen (character vector)

keepAllRSAReturnFields

specify whether you want to keep all RSA columns in the output file. (boolean)

Value

screen data frame with RSA sorting columns added.

References

A probability-based approach for the analysis of large-scale RNAi screens. Renate Konig et al. Nature Methods 2007

Examples

	data(uuk_screen)
	
	#extract the first 1000 lines in order to speed up the example
	screen = uuk_screen[1:1000,]
	
	screen_ranked <- launch_RSA(screen, strGeneCol="GeneID", strScoreCol="score")