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Functions to copy R script templates for no automatized analysis #1

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lpantano opened this issue Jun 4, 2018 · 1 comment

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lpantano commented Jun 4, 2018

It would be useful to have this code in a function:

source = file.path(system.file("rmarkdown", package="hbcABC"),
          "Rscripts", 
          "singlecell",
          "clustering_seurat.R")
file.copy(source, "clustering.r")

so we can just call copy_clustering_seurat(final_location). Good things about making functions:

you can use auto-complete in R, so you can see all the files and navigate to the one you want to use.
It would be good to support copying from remote to have the last version :)

The text was updated successfully, but these errors were encountered:

mjsteinbaugh commented Jun 5, 2018

That's essentially what the prepareTemplate() function in bcbioBase does, which we can modify to copy scripts instead:
https://github.com/hbc/bcbioBase/blob/master/R/prepareTemplate.R

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