parametersFromFile: Scan Parameters From a R Code File
In andreyshabalin/ramwas: Fast Methylome-Wide Association Study Pipeline for Enrichment Platforms

Description Usage Arguments Details Value Note Author(s) See Also Examples

The pipeline parameters can be stored in a simple file, formatted as R code. The parametersFromFile function transforms them into a parameter list used by RaMWAS steps.

1	parametersFromFile(.parameterfile)

.parameterfile

Name of the file with the parameters set as R variables. See the example below.

Variables with names starting with period (.) are ignored.

Returns the list with all the variables set in the file.

The file .parameterfile is executed as R code, so use only trusted parameter files.

Andrey A Shabalin andrey.shabalin@gmail.com

See vignettes: browseVignettes("ramwas").

filename = tempfile()

# Create a file with lines
# dirproject = "."
# modelcovariates = c("Age","Sex")

writeLines(
    con = filename,
    text = c(
        "dirproject = \".\"",
        "modelcovariates = c(\"Age\",\"Sex\")")
    )

# Scan the file into a list
param = parametersFromFile(filename)

# Show the list
print(param)

file.remove(filename)