Merge pull request #21 from mdnestor/master

simplify filter_msgf_data
vladpetyuk · Sep 25, 2020 · b3d9d25 · b3d9d25
2 parents b167535 + 2e5dbe6
commit b3d9d25
Showing 1 changed file with 1 addition and 5 deletions.
diff --git a/R/filter_msgf_data.R b/R/filter_msgf_data.R
@@ -35,11 +35,7 @@ filter_msgf_data <- function(msnid,
    if (level == "peptide") {
       msnid$msmsScore <- -log10(msnid$PepQValue)
       msnid$absParentMassErrorPPM <- abs(mass_measurement_error(msnid))
-   }
-
-   filtObj <- MSnIDFilter(msnid)
-
-   if (level == "peptide") {
+      filtObj <- MSnIDFilter(msnid)
       filtObj$absParentMassErrorPPM <- list(comparison="<", threshold=10.0)
       filtObj$msmsScore <- list(comparison=">", threshold=2.0)
       method <- "Nelder-Mead"