present.cdf.3d: Generates 3 dimensional plots for LCMS data.

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

Description

This function takes the matrix output from proc.cdf() and generates a 3D plot of the data. It relies on the rgl library.

Usage

present.cdf.3d(prof, fill.holes = TRUE, transform = "none", time.lim = NA, mz.lim = NA, box = TRUE, axes = TRUE)

Arguments

prof	The matrix output from the proc.cdf() function.
fill.holes	A lot of peaks have missing values at some time points. If fill.holes is TRUE, the function will fill in the missing values by interpolation.
transform	If the value is "sqrt", the values are transformed by taking square root. If "cuberoot", the values are transformed by taking cubic root.
time.lim	The limit in retention time for the area of spectrum to be plotted. It should be either NA or a vector of two values: the lower limit and the upper limit.
mz.lim	The limit in m/z value for the area of spectrum to be plotted. It should be either NA or a vector of two values: the lower limit and the upper limit.
box	If a box should be drawn.
axes	If the axes should be drawn.

Details

The function calls the rgl library. Spectrum values within the time.lim and mz.lim range is plotted in 3D.

Value

There is no return value from this function.

Author(s)

Tianwei Yu <[e-mail]>

References

http://rgl.neoscientists.org/about.shtml

Examples

data(prof)
present.cdf.3d(prof[[2]],time.lim=c(250,400), mz.lim=c(400,500))

yufree/apLCMS documentation built on Jan. 11, 2020, 8:18 p.m.