get.all.qnorm: Computes normalized data for all observed scores

In rxmenezes/rscreenorm: Normalization of Multiple Genetic Screens Data

Description

This is an internal function that yields normalized lethality scores by fitting a regression between the original and the normalized percentiles for core set scores. It is called by both get.rscreenorm and get.qnorm, and is to be used internally.

Usage

get.all.qnorm(data_rscreen, data_perc, data_perc_qn)

Arguments

data_rscreen	an object of class 'rscreen.object', most likely corresponding to lethality scores produced by get.leth.scores. It is also possible to normalize re-scaled screen viability data, such as yielded by read.screen.data, or by combine.screens, although these tend to be less comparable between cell lines and replicates than the scores.
data_perc	the percentiles of the per-replicate scores for the replicate-specific invariannt sets, as yielded by get.perc.
data_perc_qn	the quantile-normalized percentiles of the per-replicate data, as yielded by get.perc.qnorm.

Value

a matrix with the same dimensions as the 'data_only' slot of data_rscreen, containing the quantile-normalized scores.

See Also

get.rscreenorm which yields core sets and quantile-normalizes data at once, codeget.qnorm which quantile-normalizes data for a given core set, get.perc to compute percentiles for the core set per replicate, get.inv.set for obtaining core sets for all replicates in the dataset and get.perc.qnorm to compute the quantile-normalized percentiles.

rxmenezes/rscreenorm documentation built on May 15, 2019, 1:19 p.m.