proteomicsCV {proteomicsCV}

protLogCV protCV

Description

Calculates the percentage CV for intensity based proteomic data.

Usage

protLogCV(data, log_transformed)
protCV(data)

Arguments

data

input dataframe of the intensity values. These should be normalised already for optimal results.

log_transformed

'no' for data that has not been log transformed. 'yes' for natural log transformed data. (log() function in R)

Value

returns a list of percentage CVs

Author(s)

Alejandro J. Brenes

Examples

library(proteomicsCV)
intensity_df<-data.frame(intensity1=c(23.88,23.55,23.41,23.15),
                         intensity2=c(23.98,23.56,23.43,23.29),
                         intensity3=c(23.94,23.635,23.37,23.21),
                         intensity4=c(23.81,23.57,23.54,23.08))

# log formula with the data already transformed to natural log
cvs<-protLogCV(intensity_df, "yes")
# log formula with the data not log transformed
not_log_intensity_df<-exp(1)^intensity_df
cvs<-protLogCV(not_log_intensity_df,"no")
# base formula with raw intensity (no log transformation)
raw_cvs<-protCV(not_log_intensity_df)