retrieveFilesWGS: Retrieves the WGS files needed for analysis into the same...
In J0bbie/R2CPCT: Misc. functions to perform import and analysis of WGS and RNA-Seq samples

Retrieves the files (grep) based on CPCT identifiers and symlinks them into the same folder for easier manipulation.

1	retrieveFilesWGS(pathHMF, pathOutput, cpctIds)

`pathHMF`	(character): Path to main folder containing the WGS files of the data-request (DR).
`pathOutput`	(character): Path to output folder which will contain the symlinks.
`cpctIds`	(character): The samples which will be retrieved.

(NULL) Does not return anything, only outputs logging messages.

 retrieveFilesWGS(
 pathHMF = 'DR-071/rawData/WGS/',
 pathOutput = 'DR-071/combinedData/',
 cpctIds = c('CPCT02124567', 'CPCT02012345123')
 )

J0bbie/R2CPCT documentation built on Feb. 24, 2022, 8:15 a.m.

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