Question: Does OnDiskMSnExp rewrite original data
0
gravatar for goh
15 months ago by
goh0
goh0 wrote:

Hi,

I'm currently using the new xcms function which executes the following command

raw_data <- readMSData(files = cdfs, pdata = new("NAnnotatedDataFrame", pd), mode = "onDisk") 

 

The command uses OnDiskMSnExp object from MSnbase Bioconductor package. May i know if i made any changes such as retention time alignment using the following command

xdata <- adjustRtime(xdata, param = ObiwarpParam(binSize = 0.6)) 

Does it overwrites my original files ? or it juz creates a new data in Rstudio environment?

Thank you.

Goh. 

 

xcms msnbase ondiskmsnexp • 280 views
ADD COMMENTlink modified 15 months ago by Laurent Gatto1.2k • written 15 months ago by goh0
Answer: Does OnDiskMSnExp rewrite original data
3
gravatar for Laurent Gatto
15 months ago by
Laurent Gatto1.2k
Belgium
Laurent Gatto1.2k wrote:

Hi Goh,

No, your original data isn't modified at all. The only way to modify raw data on disk is to write it explicitly to a file using writeMSData. Note however that in your example, the raw data object raw_data, once created, isn't modified at all, as you use xdata to adjust retention time - probably only a result of copy/pasting parts of a longer script.

ADD COMMENTlink written 15 months ago by Laurent Gatto1.2k
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