UpdateInstrumentParameters: Update the mSetObj with user-selected parameters for MS Peaks...
In xia-lab/MetaboAnalystR3.0: An R Package for Comprehensive Analysis of Metabolomics Data
Description
Usage
Arguments
Author(s)
View source: R/peaks_to_function.R
Description
This functions handles updating the mSet object for mummichog analysis. It is necessary to utilize this function
to specify to the organism's pathways to use (libOpt), the mass-spec mode (msModeOpt) and mass-spec instrument (instrumentOpt).
Usage
1
UpdateInstrumentParameters(mSetObj=NA, instrumentOpt, msModeOpt, custom=FALSE)
Arguments
mSetObj
Input the name of the created mSetObj (see InitDataObjects).
instrumentOpt
Numeric. Define the mass-spec instrument used to perform untargeted metabolomics.
msModeOpt
Character. Define the mass-spec mode of the instrument used to perform untargeted metabolomics.
force_primary_ion
Character, if "yes", only mz features that match compounds with a primary ion are kept.
custom
Logical, select adducts for mummichog to consider.
Author(s)
Jasmine Chong, Jeff Xia jeff.xia@mcgill.ca
McGill University, Canada
License: GNU GPL (>= 2)
xia-lab/MetaboAnalystR3.0 documentation built on May 6, 2020, 11:03 p.m.
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Description Usage Arguments Author(s)
View source: R/peaks_to_function.R
Description
This functions handles updating the mSet object for mummichog analysis. It is necessary to utilize this function to specify to the organism's pathways to use (libOpt), the mass-spec mode (msModeOpt) and mass-spec instrument (instrumentOpt).
Usage
1 | UpdateInstrumentParameters(mSetObj=NA, instrumentOpt, msModeOpt, custom=FALSE)
|
Arguments
mSetObj |
Input the name of the created mSetObj (see InitDataObjects). |
instrumentOpt |
Numeric. Define the mass-spec instrument used to perform untargeted metabolomics. |
msModeOpt |
Character. Define the mass-spec mode of the instrument used to perform untargeted metabolomics. |
force_primary_ion |
Character, if "yes", only mz features that match compounds with a primary ion are kept. |
custom |
Logical, select adducts for mummichog to consider. |
Author(s)
Jasmine Chong, Jeff Xia jeff.xia@mcgill.ca McGill University, Canada License: GNU GPL (>= 2)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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