variable_importance measures importance of variables based on
specified methods.
variable_importance( sample, variables, operation = "replicate_correlation", ... )
| sample | tbl containing sample used to estimate parameters. |
|---|---|
| variables | character vector specifying observation variables. |
| operation | optional character string specifying method for computing
variable importance. This must be one of the strings
|
| ... | arguments passed to variable importance operation. |
data frame containing variable importance measures.
set.seed(123) x1 <- rnorm(10) x2 <- x1 + rnorm(10) / 100 y1 <- rnorm(10) y2 <- y1 + rnorm(10) / 10 z1 <- rnorm(10) z2 <- z1 + rnorm(10) / 1 batch <- rep(rep(1:2, each = 5), 2) treatment <- rep(1:10, 2) replicate_id <- rep(1:2, each = 10) sample <- tibble::tibble( x = c(x1, x2), y = c(y1, y2), z = c(z1, z2), Metadata_treatment = treatment, Metadata_replicate_id = replicate_id, Metadata_batch = batch ) head(sample)#> # A tibble: 6 x 6 #> x y z Metadata_treatment Metadata_replicate_id Metadata_batch #> <dbl> <dbl> <dbl> <int> <int> <int> #> 1 -0.560 -1.07 -0.695 1 1 1 #> 2 -0.230 -0.218 -0.208 2 1 1 #> 3 1.56 -1.03 -1.27 3 1 1 #> 4 0.0705 -0.729 2.17 4 1 1 #> 5 0.129 -0.625 1.21 5 1 1 #> 6 1.72 -1.69 -1.12 6 1 2# `replicate_correlation`` returns the median, min, and max # replicate correlation (across batches) per variable variable_importance( sample = sample, variables = c("x", "y", "z"), operation = "replicate_correlation", strata = c("Metadata_treatment"), replicates = 2, split_by = "Metadata_batch", replicate_by = "Metadata_replicate_id", cores = 1 )#> # A tibble: 3 x 4 #> variable median min max #> <chr> <dbl> <dbl> <dbl> #> 1 x 1.00 1.00 1.00 #> 2 y 0.996 0.993 0.999 #> 3 z 0.627 0.290 0.964# `svd_entropy`` measures the contribution of each variable in decreasing # the data entropy. variable_importance( sample = sample, variables = c("x", "y", "z"), operation = "svd_entropy", cores = 1 )#> # A tibble: 3 x 2 #> variable svd_entropy #> <chr> <dbl> #> 1 x 0.143 #> 2 y 0.157 #> 3 z 0.158