| write_generic_template {mpwR} | R Documentation |
Create generic template
Description
Generation of a template.csv file for generic input data. The template is provided in long-format.
Usage
write_generic_template(path_filename)
Arguments
path_filename |
Path to folder where template is generated and user-defined filename |
Details
The generated template.csv file can be used to create a software-independent input file for mpwR. Example entries are provided. The template file - filename_Report.csv - is generated. The appendix "_Report" is required for importing with mpwR. Note that the template is in long-format, so each ProteinGroup.ID has possible multiple entries depending on the number of Precursor.IDs.
Value
This function returns a csv-file with the following columns:
Run_mpwR - name of file(s).
ProteinGroup.IDs_mpwR - ProteinGroup with identifier(s) of protein(s) contained in the protein group.
Protein.IDs_mpwR - Protein identifier(s).
Peptide.IDs_mpwR - Sequence representation plus possible post-translational modifications.
Precursor.IDs_mpwR - Sequence representation plus possible post-translational modifications including charge state.
Stripped.Sequence_mpwR - The amino acid sequence of the identified peptide without modifications.
Precursor.Charge_mpwR - Charge state of the precursor.
Missed.Cleavage_mpwR - Number of missed enzymatic cleavages.
Retention.time_mpwR - Retention time in minutes in the elution profile of the precursor ion.
ProteinGroup_LFQ_mpwR - LFQ intensity column on proteingroup-level
Peptide_LFQ_mpwR - LFQ intensity column on petide-level
Author(s)
Oliver Kardell
Examples
## Not run:
write_generic_template(path = "DIRECTORY_WHERE_FILE_IS_GENERATED/filename")
## End(Not run)