| grabMzmlMS1 {RaMS} | R Documentation |
Extract the MS1 data from an mzML nodeset
Description
Extract the MS1 data from an mzML nodeset
Usage
grabMzmlMS1(xml_data, rtrange, file_metadata, prefilter, incl_polarity)
Arguments
xml_data |
An 'xml2' nodeset, usually created by applying 'read_xml' to an mzML file. |
rtrange |
A vector of length 2 containing an upper and lower bound on retention times of interest. Providing a range here can speed up load times (although not enormously, as the entire file must still be read) and reduce the final object's size. |
file_metadata |
Information about the file used to decode the binary arrays containing m/z and intensity information. |
prefilter |
The lowest intensity value of interest, used to reduce file size (and especially useful for profile mode data with many 0 values) |
incl_polarity |
Boolean determining whether the polarity of the scan should be returned as a column in the table (positive mode = 1, negative mode = -1) |
Value
A 'data.table' with columns for retention time (rt), m/z (mz), and intensity (int).