alignToRefMST: Aligns an analyte for an edge of MST

In shubham1637/DIAlign: Dynamic Programming Based Alignment of MS2 Chromatograms

Aligns an analyte for an edge of MST

Description

df contains unaligned features for an analyte across multiple runs. This function aligns eXp run to ref run and updates corresponding features.

Usage

alignToRefMST(iNet, net, fileInfo, XICs, params, analytes, df, globalFits, RSE)

Arguments

iNet	(integer) the index of edge to be aligned in the net.
net	(matrix) each row represents an edge of MST.
fileInfo	(data-frame) output of getRunNames.
XICs	(list of dataframes) fragment-ion chromatograms of the analytes for all runs.
params	(list) parameters are entered as list. Output of the paramsDIAlignR function.
analytes	(string) precursor IDs of the requested peptide.
df	(dataframe) a collection of features related to analytes.
globalFits	(list) each element is either of class lm or loess. This is an output of getGlobalFits.
RSE	(list) Each element represents Residual Standard Error of corresponding fit in globalFits.

Value

invisible NULL

Author(s)

Shubham Gupta, [e-mail]

ORCID: 0000-0003-3500-8152

License: (c) Author (2021) + GPL-3 Date: 2021-05-15

See Also

mstAlignRuns, MSTperBatch, setAlignmentRank, getMultipeptide

Examples

dataPath <- system.file("extdata", package = "DIAlignR")

shubham1637/DIAlign documentation built on March 27, 2023, 7:12 a.m.