cont.index: Continuity index

View source: R/cont.index.R

cont.indexR Documentation

Continuity index

Description

This is an internal function. It uses continuity index (or "run filter") to select putative peaks from EIC.

Usage

cont.index(newprof, min.pres = 0.6, min.run = 5)

Arguments

newprof

The matrix containing m/z, retention time, intensity, and EIC label as columns.

min.pres

Run filter parameter. The minimum proportion of presence in the time period for a series of signals grouped by m/z to be considered a peak.

min.run

Run filter parameter. The minimum length of elution time for a series of signals grouped by m/z to be considered a peak.

Details

This is the run filter described in Yu et al Bioinformatics 2009.

Value

A list is returned.

new.rec

The matrix containing m/z, retention time, intensity, and EIC label as columns after applying the run filter.

height.rec

The vector of peak heights.

time.range.rec

The vector of peak retention time span.

mz/pres.rec

The vector of proportion of non-missing m/z.

Author(s)

Tianwei Yu <tyu8@emory.edu>

References

Bioinformatics. 25(15):1930-36. BMC Bioinformatics. 11:559.


yufree/apLCMS documentation built on May 19, 2024, 1:22 p.m.