Fix Bioconductor version

Author: jorainer

README.md

@@ -53,8 +53,14 @@ This workflow (and future versions) are deposited at
 
 Johannes Rainer and Philippine Louail. xcmsTutorials version 1.1.0: Exploring
 and analyzing LC-MS data with Spectra and xcms. Zenodo, May
-13, 2024. https://doi.org/10.5281/zenodo.11185521.
+13, 2024. https://doi.org/10.5281/zenodo.11185521 .
 
+Louail P, Brunius C, Garcia-Aloy M, Kumler W, Storz N, Stanstrup J, Treutler H,
+Vangeenderhuysen P, Witting M, Neumann S, Rainer J. xcms in Peak Form: Now
+Anchoring a Complete Metabolomics Data Preprocessing and Analysis Software
+Ecosystem. Anal Chem. 2025 Dec 8. doi:
+[10.1021/acs.analchem.5c04338](https://doi.org/10.1021/acs.analchem.5c04338).
+Epub ahead of print. PMID: 41359826.
 
 ## Installation
 
@@ -64,22 +70,22 @@ container. After installation, this docker container can be run on the computer
 and the code and examples from the workshop can be evaluated within this
 environment (without the need to install any additional packages or files).
 
-This version of the workshop uses packages from **Bioconductor release 3.19**
-(May 2024) and hence bases on Bioconductor's docker container for that release
-(*RELEASE_3_19*). The required steps for installation are:
+This version of the workshop uses packages from **Bioconductor release 3.22**
+(October 2025) and hence bases on Bioconductor's docker container for that
+release (*RELEASE_3_22*). The required steps for installation are:
 
 - If you don't already have, install [docker](https://www.docker.com/). Find
   installation information [here](https://docs.docker.com/desktop/).
 - Get the [docker image](https://hub.docker.com/r/jorainer/xcms_tutorials) of
   this tutorial e.g. from the command line with `docker pull
-  jorainer/xcms_tutorials:RELEASE_3_19`.
+  jorainer/xcms_tutorials:RELEASE_3_22`.
 - Start the docker container, either through the Docker Desktop, or on the
   command line with
 ```
   docker run \
       -e PASSWORD=bioc \
       -p 8787:8787 \
-      jorainer/xcms_tutorials:RELEASE_3_19
+      jorainer/xcms_tutorials:RELEASE_3_22
 ```
 
 - Enter `http://localhost:8787` in a web browser and log in with username
@@ -88,7 +94,7 @@ This version of the workshop uses packages from **Bioconductor release 3.19**
   the *vignettes* folder and evaluate the R code blocks in that document.
 
 
-For manual installation, an R version >= 4.4.0 is required as well as recent
+For manual installation, an R version >= 4.5.0 is required as well as recent
 versions of the packages `MsExperiment`, `Spectra` and in particular the
 `xcms`. These can be installed using the code below:
 
@@ -128,4 +134,4 @@ Conduct](https://rformassspectrometry.github.io/RforMassSpectrometry/articles/Rf
 # Acknowledgments
 
 Thank you to [Philippine Louail](https://github.com/philouail) for fixing typos
-and suggesting improvements.
+and suggesting improvements.