| mzmatch.ipeak.convert.ConvertToText {mzmatch.R} | R Documentation |
Converts the contents of a PeakML file to a tab-separated text file.
mzmatch.ipeak.convert.ConvertToText(JHeapSize=1425, i, o, databases, annotations, h, v)
JHeapSize |
Amount of RAM memory in megabytes, which should be reserved by the Java virtual machine. The default value is 1425 megabytes. |
i |
The input file in the PeakML file format. When this option is not set, the input is read from the standard input. |
o |
The output file in text format. When this option is not set, the ouput is written to the standard out. Be sure to unset the verbose option when setting up a pipeline reading and writing from the standard in- and outputs. |
databases |
Optional list of database-files in the moleculedb format. These databases are used to translate the id's in the annotation 'identifications' to full molecule names. |
annotations |
Optional list of annotations to be exported. |
h |
When this is set, the help is shown. |
v |
When this is set, the progress is shown on the standard output. |
Converts the contents of a PeakML file to a tab-separated text file. In order to make the file useable in a spreadsheet environment, only the top-level data for each measurement is given in the file. This application has been extended with support for outputting annotations.
This function returns no value.
RA Scheltema (r.a.scheltema@rug.nl)
0. PeakML/mzMatch - a file format, Java library, R library and tool-chain for mass spectrometry data analysis. In preparation.