diff --git a/DESCRIPTION b/DESCRIPTION
index 3f5e090..989aee2 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -1,7 +1,7 @@
 Type: Package
 Package: MSstatsLiP
 Title: LiP Significance Analysis in shotgun mass spectrometry-based proteomic experiments
-Version: 1.17.0
+Version: 1.17.1
 Date: 2024-3-19
 Description: Tools for LiP peptide and protein significance analysis. Provides 
               functions for summarization, estimation of LiP peptide abundance, 
@@ -20,7 +20,7 @@ Authors@R: c(person("Devon", "Kohler", email = "kohler.d@northeastern.edu", role
 License: Artistic-2.0
 Depends: R (>= 4.1)
 Imports: dplyr, gridExtra, stringr, ggplot2, grDevices, MSstats, MSstatsConvert,
-          data.table, Biostrings, MSstatsPTM, Rcpp, checkmate, factoextra, 
+          data.table, Biostrings, MSstatsPTM (>= 2.12.0), Rcpp, checkmate, factoextra, 
           ggpubr, purrr, tibble, tidyr, tidyverse, scales, stats, plotly, htmltools
 Suggests: BiocStyle, knitr, rmarkdown, covr, tinytest, gghighlight
 LinkingTo: Rcpp
diff --git a/R/groupComparisonLiP.R b/R/groupComparisonLiP.R
index 5304b1c..14ea065 100644
--- a/R/groupComparisonLiP.R
+++ b/R/groupComparisonLiP.R
@@ -92,9 +92,20 @@ groupComparisonLiP <- function(data, contrast.matrix = "pairwise",
                       PROTEIN = data.protein)
 
   ## Model
-  model.data <- groupComparisonPTM(format.data, "LabelFree", contrast.matrix,
-                                   FALSE, "BH", log_base, use_log_file, append,
-                                   verbose, path, base)
+  model.data <- groupComparisonPTM(
+      format.data, 
+      ptm_label_type = "LF", 
+      protein_label_type = "LF",
+      contrast.matrix = contrast.matrix,
+      moderated = FALSE, 
+      adj.method = "BH", 
+      log_base = log_base, 
+      use_log_file = use_log_file, 
+      append = append,
+      verbose = verbose, 
+      log_file_path = path, 
+      base = base
+  )
   model.data$ADJUSTED.Model <- model.data$ADJUSTED.Model[!is.na(
     model.data$ADJUSTED.Model$Protein)]