small changes per bioc submission

MicTott · Mar 20, 2024 · c06b93c · c06b93c
1 parent 4772ff5
commit c06b93c
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diff --git a/DESCRIPTION b/DESCRIPTION
@@ -25,7 +25,7 @@ Encoding: UTF-8
 Roxygen: list(markdown = TRUE)
 RoxygenNote: 7.3.1
 Depends:
-    R (>= 4.4.0)
+    R (>= 4.3.0)
 Imports:
     SpatialExperiment,
     SummarizedExperiment,

diff --git a/R/findArtifacts.R b/R/findArtifacts.R
@@ -128,8 +128,8 @@ findArtifacts <- function(spe, mito_percent="expr_chrM_ratio",
     # =========== Artifact annotation ===========
 
     # calculate average local variance of the two clusters
-    clus1_mean <- mean(colData(spe.temp)[[paste0("k", tmp.name)]][spe.temp$Kmeans==1])
-    clus2_mean <- mean(colData(spe.temp)[[paste0("k", tmp.name]][spe.temp$Kmeans==2])
+    clus1_mean <- mean(colData(spe.temp)[[tmp.name]][spe.temp$Kmeans==1])
+    clus2_mean <- mean(colData(spe.temp)[[tmp.name]][spe.temp$Kmeans==2])
 
     artifact_clus <- which.min(c(clus1_mean, clus2_mean))