getLOESSfit: Calculates LOESS fit between RT of two runs

In Roestlab/DIAlignR: Dynamic Programming Based Alignment of MS2 Chromatograms

Description

This function selects features from oswFiles which has m-score < maxFdrLoess. It fits LOESS on these feature. Loess mapping is established from reference to experiment run.

Usage

getLOESSfit(oswFiles, ref, eXp, maxFdrGlobal, spanvalue = 0.1)

Arguments

oswFiles	(list of data-frames) it is output from getFeatures function.
ref	(string) Must be a combination of "run" and an iteger e.g. "run2".
eXp	(string) Must be a combination of "run" and an iteger e.g. "run2".
maxFdrGlobal	(numeric) A numeric value between 0 and 1. Features should have m-score lower than this value for participation in LOESS fit.
spanvalue	(numeric) Spanvalue for LOESS fit. For targeted proteomics 0.1 could be used.

Value

An object of class "loess".

Author(s)

Shubham Gupta, [e-mail]

ORCID: 0000-0003-3500-8152

License: (c) Author (2019) + GPL-3 Date: 2019-12-14

See Also

getLinearfit, getFeatures

Examples

data(oswFiles_DIAlignR, package="DIAlignR")
## Not run: 
Loess.fit <- getLOESSfit(oswFiles = oswFiles_DIAlignR, ref = "run1", eXp = "run2",
 maxFdrGlobal = 0.05, spanvalue = 0.1)

## End(Not run)

Roestlab/DIAlignR documentation built on March 3, 2021, 9:09 a.m.