peptide_selection: Select Peptides

In melissakey/PQPQ: This is a port of Jenny Forshed's PQPQ package to R from Matlab.

Description

This function does some additional processing, and validates the peptides assigned to each protein.

Usage

peptide_selection(input_data, column_identifiers, the_limit = 0,
  p_val = 0.4, peptide_confidence_limit = 95, do_normalization = TRUE,
  protein_subset = NULL)

Arguments

input_data	A data frame or list of data frames
column_identifiers	a list of labeled variable names.
the_limit	"peptide sum intensity limit"
p_val	"maximum p-value of the correlation coefficient
peptide_confidence_limit	"high confidence limit", or the minimum peptide confidence score
do_normalization	should the data be normalized?

Details

If the data is entered as a list of data frames (1 per replicate), the data is split across replicates and labeled

Value

A list, containing the cleaned data.frame and the list of labeled variable names.

melissakey/PQPQ documentation built on May 4, 2019, 7:42 p.m.