UpdateInstrumentParameters: Update the mSetObj with user-selected parameters for MS Peaks...
In xia-lab/MetaboAnalystR: An R Package for Comprehensive Analysis of Metabolomics Data
View source: R/peaks_to_function.R
UpdateInstrumentParameters R Documentation
Update the mSetObj with user-selected parameters for MS Peaks to Pathways.
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
UpdateInstrumentParameters(mSetObj=NA, instrumentOpt,
msModeOpt, force_primary_ion, rt_frac, rt_tol)
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.
rt_frac
rt_frac.
rt_tol
rt_tol.
Author(s)
Jasmine Chong, Jeff Xia jeff.xia@mcgill.ca
McGill University, Canada
License: GNU GPL (>= 2)
xia-lab/MetaboAnalystR documentation built on Dec. 23, 2024, 3:44 p.m.
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View source: R/peaks_to_function.R
| UpdateInstrumentParameters | R Documentation |
Update the mSetObj with user-selected parameters for MS Peaks to Pathways.
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
UpdateInstrumentParameters(mSetObj=NA, instrumentOpt,
msModeOpt, force_primary_ion, rt_frac, rt_tol)
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. |
rt_frac |
rt_frac. |
rt_tol |
rt_tol. |
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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