updated to use latest version of grappolo

ParkerICI · Jun 21, 2019 · 3180392 · 3180392
1 parent 33cecc0
commit 3180392
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diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,7 +1,7 @@
 Package: vite
 Type: Package
 Title: Analyzing single-cell data using graphs
-Version: 0.4.6
+Version: 0.4.7
 Authors@R: "Pier Federico Gherardini <pfgherardini@parkerici.org> [aut, cre]"
 Description: This is a package for visualization and analysis of high-dimensional
     single-cell data using graphs

diff --git a/R/scaffold.R b/R/scaffold.R
@@ -47,7 +47,7 @@ load_landmarks <- function(files.list, asinh.cofactor, transform.data, ...) {
         population <- tail(strsplit(basename(f), "_")[[1]], n = 1)
         population <- gsub(".fcs", "", population)
         fcs <- flowCore::read.FCS(f, ...)
-        tab <- grappolo::convert_fcs(fcs, asinh.cofactor, transform.data, clip.at.zero = T)
+        tab <- grappolo::convert_fcs(fcs, asinh.cofactor, transform.data, negative.values = "truncate")
 
         tab <- data.frame(tab, cellType = population, stringsAsFactors = F, check.names = F)
         res <- rbind(res, tab)