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chore(docs): Fix documentation on fragpipe parameters #108

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tonywu1999 merged 1 commit into from
Mar 25, 2025
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chore(docs): Fix documentation on fragpipe parameters #108

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4 changes: 2 additions & 2 deletions R/converters.R
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Original file line number Diff line number Diff line change
Expand Up @@ -191,9 +191,9 @@ DIANNtoMSstatsPTMFormat = function(input,
#' The probability is confidence score determined by PeptideProphet and higher values indicate greater confidence.
#' @param useUniquePeptide logical, if TRUE (default) removes peptides that are assigned for more than one proteins.
#' We assume to use unique peptide for each protein.
#' @param rmPSM_withfewMea_withinRun TRUE (default) will remove the features that have 1 or 2 measurements within each Run.
#' @param rmPSM_withfewMea_withinRun TRUE will remove the features that have 1 or 2 measurements within each Run. Default is FALSE.
#' @param rmPeptide_OxidationM TRUE (default) will remove the peptides including oxidation (M) sequence.
#' @param rmProtein_with1Feature TRUE will remove the proteins which have only 1 peptide and charge. Defaut is FALSE.
#' @param rmProtein_with1Feature TRUE will remove the proteins which have only 1 peptide and charge. Default is FALSE.
#' @param summaryforMultipleRows sum (default) or max - when there are multiple measurements for certain feature in certain run,
#' select the feature with the largest summation or maximal value.
#' @param use_log_file logical. If TRUE, information about data processing will
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4 changes: 2 additions & 2 deletions man/FragPipetoMSstatsPTMFormat.Rd
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