plot.txt.2d: Plot the data in the m/z and retention time plane.

In yufree/apLCMS: Adaptive processing of LC-MS data

Plot the data in the m/z and retention time plane.

Description

This is a diagnostic function. It takes the original text file, as well as the detected feature table, and plots the data in the m/z - retention time plane, using a user-defined range. The entire data is too big to plot, thus the main purpose is to focus on small subregions of the data and check the peak detection results.

Usage

plot.cdf.2d(rawname, f, mzlim, timelim, lwd = 1)

Arguments

rawname	The text file name.
f	The output object of prof.to.feature().
mzlim	The m/z range to plot.
timelim	The retention time range to plot.
lwd	Line width parameter, to be passed on to the function line().

Details

The columns in the text file need to be separated by tab. The first column needs to be the retention time, the second column the m/z values, and the third column the intensity values. The first row needs to be the column labels, rather than values.

Value

There is no return value.

Author(s)

Tianwei Yu <[e-mail]>

References

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

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