import S4vectors

fgcz · Nov 30, 2021 · c8745e7 · c8745e7
1 parent 2ac4c0a
commit c8745e7
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Showing 4 changed files with 2 additions and 4 deletions.
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -51,7 +51,6 @@ Imports:
     readxl,
     rlang,
     stringr,
-    S4Vectors,
     tidyverse,
     tidyr,
     tibble,
@@ -69,6 +68,7 @@ Suggests:
     pROC,
     plyr,
     rmarkdown,
+    S4Vectors,
     testthat,
     prolfquaData,
     SummarizedExperiment,

diff --git a/NAMESPACE b/NAMESPACE
@@ -196,7 +196,6 @@ import(ggplot2)
 import(tidyverse)
 importFrom(GGally,ggpairs)
 importFrom(MASS,rlm)
-importFrom(S4Vectors,SimpleList)
 importFrom(conflicted,conflict_prefer)
 importFrom(dplyr,all_of)
 importFrom(dplyr,anti_join)

diff --git a/R/A_dataset_docu.R b/R/A_dataset_docu.R
@@ -28,7 +28,6 @@
 #' @importFrom stats na.omit p.adjust pbeta power.t.test prcomp predict pt qt quantile sd setNames sigma terms update vcov
 #' @importFrom stringr str_trim
 #' @import tidyverse
-#' @importFrom S4Vectors SimpleList
 #' @importFrom utils combn data head read.csv tail unzip
 #' @importFrom yaml write_yaml
 NULL

diff --git a/R/LFQData.R b/R/LFQData.R
@@ -1193,7 +1193,7 @@ LFQDataToSummarizedExperiment <- function(lfqdata){
     wide <- lfqdata$to_wide(as.matrix = TRUE)
     ann <- data.frame(wide$annotation)
     rownames(ann) <- wide$annotation$sampleName
-    se <- SummarizedExperiment::SummarizedExperiment(SimpleList(LFQ = wide$data), colData = ann)
+    se <- SummarizedExperiment::SummarizedExperiment(S4Vectors::SimpleList(LFQ = wide$data), colData = ann)
     return(se)
   }
 }