jorainer
commented
2 years ago What you should also do before running this (or also when you modify the water Rmd):
- remove the RData folder to enforce re-performing the pre-processing.
- install the most recent package versions from github. The code below should work:
BiocManager::install("RforMassSpectrometry/ProtGenerics")
BiocManager::install("RforMassSpectrometry/MsCoreUtils")
BiocManager::install("RforMassSpectrometry/MetaboCoreUtils")
BiocManager::install("RforMassSpectrometry/Spectra")
BiocManager::install("RforMassSpectrometry/CompoundDb")
BiocManager::install("RforMassSpectrometry/MsBackendMassbank")
BiocManager::install("RforMassSpectrometry/MetaboAnnotation")
BiocManager::install("sneumann/mzR")
BiocManager::install("lgatto/MSnbase")
BiocManager::install("sneumann/xcms")
Some fixes to the code and some updates to the description.