Metabolomics Society Forum

Hi all,

I am working on a metabolic dataset using XCMS pipeline.

Is there a way to save the intermediate xcmsSet objects as a file which can be loaded and used later by the needed functions? e.g. loading the result of the xcmsSet() inside the group().

Thanks

You can always save R objects with

save(objectname, file = "objectname.RData")

which can then be reloaded again into R with

load("objectname.RData")

. Note however that I would suggest to switch from the old xcms workflow to the new functionality and objects to analyse data with xcms (http://sneumann.github.io/xcms/articles/xcms.html).

best, jo

Dear Johannes

Many thanks for your quick help :)


Bests
Narges

Dear Johannes

I save and load the xcmsSet object:

save(xset, file = "xset.RData")
xset = load("xset.RData")

But I think it needs type conversion after being loaded. Would you please tell me how to convert it to an xcmsSet object?

I just found type.convert(), but it dose not work in this case.

Thanks in advance
Narges