@lgatto, when you have time, could you quickly have a look at the code for creating the Dou et al. 2019 data.
inst/script/dou2019_* creates the data sets from author/paper supplied data (not exported on GitHub because too large)
R/data/R contains the roxygen2 scripts for data documentation.
What do you think?
Here are the things I'm still considering:
I export the data as peptide and protein data, maybe I should also add PSM data?
Data is exported as separate objects, but we could use the power of Features to combine all in one object.
Here, I combine different MS runs in one single MSnSet/SingleCellExperiment object (using MSnbase::combine(). Maybe it is better to keep different split apart (as we discussed previously)? Does Features also support a list of different MS experiments?
@lgatto, when you have time, could you quickly have a look at the code for creating the Dou et al. 2019 data.
inst/script/dou2019_*
creates the data sets from author/paper supplied data (not exported on GitHub because too large)R/data/R
contains theroxygen2
scripts for data documentation.What do you think?
Here are the things I'm still considering:
peptide
andprotein
data, maybe I should also addPSM
data?Features
to combine all in one object.MSnSet
/SingleCellExperiment
object (usingMSnbase::combine()
. Maybe it is better to keep different split apart (as we discussed previously)? DoesFeatures
also support a list of different MS experiments?