ms_ITTR_scaling: ms_ITTR_scaling

In nkdailingyun/mineCETSA: Processing and Visualization of Proteome-wide MS-CETSA data

Description

Function to apply systematic scaling to the ITTR dataset

Usage

ms_ITTR_scaling(
  data,
  nread = 10,
  abdnorm = TRUE,
  reftolowest = TRUE,
  remloadc = FALSE,
  loadcname = "C",
  numcharmix = FALSE,
  writefactortofile = TRUE,
  bottomlabel = "Treatment time",
  filename = "ITTR_normalization_factors.txt"
)

Arguments

data	dataset to be scaled
nread	number of reading channels or sample treatements, default value 10
abdnorm	whether to apply protein abundance level normalization, default set to TRUE
reftolowest	whether to check and re-arrange the treatment dose, (or time) in ascending order, using the readings from lowest dose (or time) group as the reference to derive ratios, default set to TRUE
remloadc	whether to remove loading control sample, default set to FALSE
loadcname	the header name of loading control sample
numcharmix	whether the treatment names contains both character and numeric values
writefactortofile	whether to save a copy of scaling factors, default set to TRUE
bottomlabel	textual label at the bottom of the plot
filename	name for the file

Value

scaled dataset in dataframe format

Examples

## Not run: 
ITTRdata_scaled <- ms_ITTR_scaling(ITTRdata_cleaned)

## End(Not run)

nkdailingyun/mineCETSA documentation built on Feb. 27, 2021, 8:26 p.m.