add_rank_col: add_rank_col

In scsR: SiRNA correction for seed mediated off-target effect

Description

This method takes in input a dataframe containing the results of an siRNA screen. Then it adds a set of column that are useful for sorting to the dataframe. At the moment the following sorting columns are provided: - column with the median value of the siRNA score for each gene - columns that comes out from the execution of the RSA sorting method (Renate Konig et al.)

Usage

add_rank_col(screen, reverse=FALSE,  scoreColName="score", geneColName="GeneID")

Arguments

screen	data frame containing the results of the siRNA experiment.
reverse	boolean specifying the direction of the sorting (from the lowest scores to the highest score or vice versa)
scoreColName	character vector with the name of the column that contains the score of the screen
geneColName	character vector withname of the column that contains the names of the genes in the screen

Value

screen data frame with sorting columns added.

Author(s)

Andrea Franceschini

References

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

Examples

 data(uuk_screen)
 uuk_screen_ranked = add_rank_col(uuk_screen[1:100,])

scsR documentation built on April 28, 2020, 7:11 p.m.