Cdsw-class: Compute dynamic swath windows

In protViz/cdsw: Computing Dynamic SWATH Windows

Description

Compute dynamic swath windows

Fields

masses

MS1 masses

breaks

the breaks

nbins

number of bins

digits

mass accuracy in result

Methods

asTable(overlap = 1)

make windows

error()

show error

optimizeWindows(digits = 1, maxbin = 15, plot = FALSE, overlap = 0)

optimizes the windows

quantile_breaks(digits = 2)

same number of MS1 in each window but might violate hard constraints

sampling_breaks(maxwindow = 150, minwindow = 5, digits = 2, plot = FALSE)

starts with quantile breaks but mixes with uniform data to satisfy had constraints

showCycle(overlap = 1)

shows the generated DIA cycle

Examples

library(cdsw)
cdsw <- Cdsw(masses)
cdsw$sampling_breaks(maxwindow=100,plot=TRUE)
cdsw$plot()
cdsw$asTable()
cdsw$breaks

protViz/cdsw documentation built on May 19, 2020, 1:03 a.m.