Get a specific feature set available on CaDrA API Portal and determine whether to include input scores and gene expression that associated with that feature set

Get a specific feature set available on CaDrA API Portal and determine whether to include input scores and gene expression that associated with that feature set

download_feature_sets(
  feature_set,
  include_input_score = TRUE,
  include_gene_expression = TRUE,
  out_dir = Sys.getenv("HOME")
)

Arguments

feature_set

a list of feature sets to look up and download the appropriate data that are associated with it.

include_input_score

a Boolean value to determine whether to include input scores that associated with the given feature sets. Default is TRUE.

include_gene_expression

a Boolean value to determine whether to include gene expression sets that associated with the given feature sets. Default is TRUE.

out_dir

a directory to save the output.

Value

a zip file

Examples

# Retrieve a list of feature sets available from CaDrA Portal
fs_list <- CaDrA.shiny::get_feature_set(order_by = "asc")

# Download feature sets and return a datalist with appropriate paths to its dataset
mydatafile <- download_feature_sets(
  feature_set = fs_list$feature_set_name[1],
  include_input_score = TRUE,
  include_gene_expression = TRUE,
  out_dir = "~/Github"
)

# Launch CaDrA Shiny app with your downloaded datalist
app <- CaDrA.shiny::CaDrA_App(id="myapp", datalist=mydatafile)
#> Error in get_extdata(datalist = datalist): There is no feature sets exists at CCLE SCNAs and Mutations.
#> Please check your files again.

# Launch Shiny app at localhost with port 3838 (NOT RUN)
# shiny::runApp(app, host='0.0.0.0', port=3838)