fix: moved from the deprecated to

Author: cvanderaa

NEWS.md

@@ -1,3 +1,21 @@
+# scp 1.19
+
+## scp 1.19.1
+
+- fix: moved from the deprecated `longFormat()` to `longForm()`
+- doc: fixed readSingleCellExperiment example (see #94)
+- doc: minor documentation recompilation
+
+## scp 1.19.0
+
+- New Bioconductor 3.22 release
+
+# scp 1.18
+
+## scp 1.18.0
+
+- New Bioconductor 3.21 release
+
 # scp 1.17
 
 ## scp 1.17.1

vignettes/QFeatures_nutshell.Rmd

@@ -343,16 +343,15 @@ ggplot(data.frame(rd)) +
 
 Combining the metadata and the quantitative data is more challenging
 since the risk of data mismatch is increased. The `QFeatures` package
-therefore provides th `longFormat` function to transform a `QFeatures`
+therefore provides th `longForm` function to transform a `QFeatures`
 object in a long `DFrame` table. For instance, we plot the
 quantitative data distribution for the first assay according to the
 acquisition channel index and colour with respect to the sample type.
 Both pieces of information are taken from the `colData`, so we provide
 them as `colvars`.
 
-```{r longFormat}
-lf <- longFormat(scp1[, , 1],
-                 colvars = c("SampleType", "Channel"))
+```{r longForm}
+lf <- longForm(scp1[, , 1], colvars = c("SampleType", "Channel"))
 ggplot(data.frame(lf)) +
     aes(x = Channel,
         y = value,

vignettes/scp.Rmd

@@ -976,7 +976,7 @@ formatted to a long format table that can easily be plugged in the
 ## Get the features related to Plastin-2 (P13796)
 subsetByFeature(scp, "P13796") |>
     ## Format the `QFeatures` to a long format table
-    longFormat(colvars = c("runCol", "SampleType", "quantCols")) |>
+    longForm(colvars = c("runCol", "SampleType", "quantCols")) |>
     data.frame() |>
     ## This is used to preserve ordering of the samples and assays in ggplot2
     mutate(assay = factor(assay, levels = names(scp)),