predict_signature {supersigs} | R Documentation |
Using a generated SuperSig, predict on a new dataset and return predicted probabilities for each observation.
predict_signature(object, newdata, factor)
object |
an object of class |
newdata |
a data frame of mutations containing columns for
|
factor |
the factor/exposure (e.g. "age", "smoking") |
predict_signature
returns the original data frame with
additional columns for the feature counts and classification score
head(example_dt) # use example data from package input_dt <- make_matrix(example_dt) # convert to correct format input_dt$IndVar <- c(1, 1, 1, 0, 0) # add IndVar column out <- get_signature(data = input_dt, factor = "Age") # get SuperSig newdata <- predict_signature(out, newdata = input_dt, factor = "age") suppressPackageStartupMessages({library(dplyr)}) head(newdata %>% select(score))