Create report of aligned peak intensities
peakTable-methods.Rd
Create a report showing all aligned peaks.
Arguments
- object
the
xcmsSet
object- filebase
base file name to save report,
.tsv
file and_eic
will be appended to this name for the tabular report and EIC directory, respectively. if blank nothing will be saved- ...
arguments passed down to
groupval
, which provides the actual intensities.
Details
This method handles creation of summary reports similar to
diffreport
. It returns a summary report that can
optionally be written out to a tab-separated file.
If a base file name is provided, the report (see Value section) will be saved to a tab separated file.
Value
A data frame with the following columns:
- mz
median m/z of peaks in the group
- mzmin
minimum m/z of peaks in the group
- mzmax
maximum m/z of peaks in the group
- rt
median retention time of peaks in the group
- rtmin
minimum retention time of peaks in the group
- rtmax
maximum retention time of peaks in the group
- npeaks
number of peaks assigned to the group
- Sample Classes
number samples from each sample class represented in the group
- ...
one column for every sample class
- Sample Names
integrated intensity value for every sample
- ...
one column for every sample