calc_sd_fcts: Calculates standard deviations and the corresponding factors...

calc_sd_fctsR Documentation

Calculates standard deviations and the corresponding factors for scaling normalization.

Description

The mean SD is based on the data from non-trivial samples. In the output, fct < 1 corresponds to the need of profile broadening in log2Ratios whereas fct > 1 corresponds to the need of profile shrinking.

Usage

calc_sd_fcts(df, range_log2r = c(0, 100), range_int = c(0, 100), label_scheme)

Arguments

df

A data frame.

range_log2r

Numeric vector at length two. The argument specifies the range of the log2FC for use in the scaling normalization of standard deviation across samples. The default is between the 10th and the 90th quantiles.

range_int

Numeric vector at length two. The argument specifies the range of the intensity of reporter ions (including I000) for use in the scaling normalization of standard deviation across samples. The default is between the 5th and the 95th quantiles.

label_scheme

Experiment summary

Details

Currently no slice dots for the utility.

Value

A data frame. Column SD, the original standard deviations; fct, the scaling factors as SD/mean(SD).


qzhang503/proteoQ documentation built on March 16, 2024, 5:27 a.m.