R Client
It is assumed you installed the vantage6-client. The R client can create tasks and retrieve their results. If you want to do more administrative tasks, either use the API directly or use the Python client.
Initialization of the R client can be done by:
setup.client <- function() {
# Username/password should be provided by the administrator of
# the server.
username <- "[email protected]"
password <- "password"
host <- 'https://petronas.vantage6.ai:443'
api_path <- ''
# Create the client & authenticate
client <- vtg::Client$new(host, api_path=api_path)
client$authenticate(username, password)
return(client)
}
# Create a client
client <- setup.client()
Then this client can be used for the different algorithms. Refer to the README in the repository on how to call the algorithm. Usually this includes installing some additional client-side packages for the specific algorithm you are using.
The R client is subject to change. We aim to make it more similar to the Python client.

Example

First you need to install the client side of the algorithm by:
devtools::install_github('iknl/vtg.coxph', subdir="src")
This is the code to run the coxph:
print( client$getCollaborations() )
# Should output something like this:
# id name
# 1 1 ZEPPELIN
# 2 2 PIPELINE
# Select a collaboration
client$setCollaborationId(1)
# Define explanatory variables, time column and censor column
expl_vars <- c("Age","Race2","Race3","Mar2","Mar3","Mar4","Mar5","Mar9",
"Hist8520","hist8522","hist8480","hist8501","hist8201",
"hist8211","grade","ts","nne","npn","er2","er4")
time_col <- "Time"
censor_col <- "Censor"
# vtg.coxph contains the function `dcoxph`.
result <- vtg.coxph::dcoxph(client, expl_vars, time_col, censor_col)
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