Johannes Rainer

Indeed. I guess it should be `min(length(x), ncol(wCoefs))`, but I'm very reluctant to change anything in the *original* centWave implementation. @sneumann might have more insights into that function - what...

The story with the alignment of blanks is a different one - it's still on the TODO list... Otherwise - have a look at the `featureSummary` function - you could...

I would always keep all the files from an experiment together (i.e. in the same `XMCSnExp` object). peak detection is done anyway on a per file (sample) basis, for the...

A `MChromatograms` is a two-dimensional data structure, thus `split` is not the best way to get the data by file. If it's just for plotting purposes, I would suggest to...

This is strange. I can not reproduce this error: ```r library(MSnbase) fls

Can you maybe drop the `pdata = new("NAnnotatedDataFrame", .),` line in `readMSData` and try again?

I had a look at the mzML file and it seems to be incomplete. Maybe pwiz crashed during conversion? The last two lines are: ``` ```

the error message comes actually from the pwiz library which `mzR` uses to read data from mzML files. What I find a little strange is that you have 3 arrays...

Sorry, that I don't know because I never converted MRM data from wiff to mzML myself.

That would be an option - or maybe @sneumann knows more about this?