dot-documentFunction: A dummy function to store shared documentation items.

.documentFunctionR Documentation

A dummy function to store shared documentation items.

Description

A dummy function to store shared documentation items.

Usage

.documentFunction()

Arguments

removeFewMeasurements

TRUE (default) will remove the features that have 1 or 2 measurements across runs.

useUniquePeptide

TRUE (default) removes peptides that are assigned for more than one proteins. We assume to use unique peptide for each protein.

summaryforMultipleRows

max(default) or sum - when there are multiple measurements for certain feature and certain run, use highest or sum of multiple intensities.

removeProtein_with1Feature

TRUE will remove the proteins which have only 1 feature, which is the combination of peptide, precursor charge, fragment and charge. FALSE is default.

removeProtein_with1Peptide

TRUE will remove the proteins which have only 1 peptide and charge. FALSE is default.

removeOxidationMpeptides

TRUE will remove the peptides including 'oxidation (M)' in modification. FALSE is default.

removeMpeptides

TRUE will remove the peptides including 'M' sequence. FALSE is default.

use_log_file

logical. If TRUE, information about data processing will be saved to a file.

append

logical. If TRUE, information about data processing will be added to an existing log file.

verbose

logical. If TRUE, information about data processing wil be printed to the console.

log_file_path

character. Path to a file to which information about data processing will be saved. If not provided, such a file will be created automatically. If 'append = TRUE', has to be a valid path to a file.


MeenaChoi/MSstats documentation built on July 13, 2024, 10:59 a.m.