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Insaynoah · Jul 9, 2024 · e1daf48 · e1daf48
1 parent 287e58b
commit e1daf48
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Showing 2 changed files with 4 additions and 3 deletions.
diff --git a/R/plotAbundance.R b/R/plotAbundance.R
@@ -276,8 +276,9 @@ setMethod("plotAbundance", signature = c("SummarizedExperiment"),
     # If user wants to calculate relative abundances, apply relative transform
     # and use relative assay instead of the original assay in plotting.
     if( use_relative ){
-        x <- transformAssay(x, assay.type = assay.type, method = "relabundance")
-        assay.type <- "relabundance"
+        temp_name <- "temporary_relative_abundance"
+        x <- transformAssay(x, assay.type = assay.type, method = "relabundance", name = temp_name)
+        assay.type <- temp_name
     }
     # Samples must have names. In theory, TreeSE can include columns without
     # names. If that is the case, add names.

diff --git a/vignettes/miaViz.Rmd b/vignettes/miaViz.Rmd
@@ -32,7 +32,7 @@ several options, such as `plotColData`, `plotExpression` and `plotRowData`.
 To install `miaViz`, install `BiocManager` first, if it is not installed.
 Afterwards use the `install` function from `BiocManager` and load `miaViz`.
 
-```{r}
+```{r install, eval=FALSE}
 if (!requireNamespace("BiocManager", quietly = TRUE))
     install.packages("BiocManager")
 BiocManager::install("miaViz")