depend on latest QFeatures

.github/workflows/check-bioc.yml

@@ -231,10 +231,10 @@ jobs:
       #     cd preprocessCore
       #     R CMD INSTALL --configure-args="--disable-threading"  .
 
-      # - name: Manually install latest QFeatures
-      #   run: |
-      #     BiocManager::install("RforMassSpectrometry/QFeatures")
-      #   shell: Rscript {0}
+      - name: Manually install latest RforMassSpectrometry/QFeatures
+        run: |
+          BiocManager::install("RforMassSpectrometry/QFeatures")
+        shell: Rscript {0}
 
       - name: Session info
         run: |

DESCRIPTION

@@ -20,7 +20,7 @@ Description: Utility functions for manipulating, processing, and
     visualization.
 Depends:
     R (>= 4.3.0),
-    QFeatures (>= 1.3.5)
+    QFeatures (>= 1.13.5)
 Imports:
     dplyr,
     IHW,

vignettes/scp.Rmd

@@ -171,7 +171,7 @@ table(sampleAnnotation$SampleType)
 Using `readSCP`, we combine both tables in a `QFeatures` object
 formatted as described above.
 
-```{r readSCP2}
+```{r readSCP}
 scp <- readSCP(assayData = mqScpData,
                colData = sampleAnnotation,
                runCol = "Raw.file",
@@ -183,7 +183,7 @@ See here that the 3 first assays contain 11 columns that correspond to
 the TMT-11 labels and the last assay contains 16 columns that
 correspond to the TMT-16 labels.
 
-**Important**: More details about the usage of `readSCP` and how to
+**Important**: More details about the usage of `readSCP()` and how to
 read your own data set are provided in the `Load data using readSCP`
 [vignette](https://uclouvain-cbio.github.io/scp/articles/read_scp.html).