calc_NNMD_robust_gene_sets: calc_NNMD_robust_gene_sets

In alex-kalinka-cruk/fgcQC: QC metric calculations for CRISPR screen data produced at the FGC

Description

Calculates a Robust equivalent of the Null-Normalized Mean Difference (NNMD) for sets of genes (based on median difference divided by median absolute deviation of reference set).

Usage

calc_NNMD_robust_gene_sets(lfc_ctrl_pl, lfc_treat_pl, gene_sets)

Arguments

lfc_ctrl_pl	A data frame of gRNA log fold change data for Control vs Plasmid.
lfc_treat_pl	A data frame of gRNA log fold change data for Treatment vs Plasmid. If 'NULL', then ignored.
gene_sets	A named list of gene sets.

Value

A data frame with columns named ‘NNMD_robust.<comp>.<gene_set>' where ’<comp' is one of 'ctrl_plasmid' or 'treat_plasmid', and '<gene_set>' is the name of each gene set provided in the 'gene_sets' list.

Author(s)

Alex T. Kalinka, [e-mail]

alex-kalinka-cruk/fgcQC documentation built on June 23, 2020, 9:05 p.m.