-
Notifications
You must be signed in to change notification settings - Fork 51
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
fix: added specific check to `perf()` to notify user when there is a single sample associated with one of the classes in a DA context test: included a basic test for function and to test functionality of new singple sample check
- Loading branch information
1 parent
6ea2b80
commit 7e7b4c9
Showing
2 changed files
with
34 additions
and
0 deletions.
There are no files selected for viewing
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -0,0 +1,28 @@ | ||
test_that("perf.mixo_splsda functions", code = { | ||
data(liver.toxicity) | ||
X <- liver.toxicity$gene | ||
Y <- liver.toxicity$treatment$Dose.Group | ||
|
||
set.seed(12) | ||
res <- plsda(X, Y, ncomp = 2) | ||
out <- perf(res, validation = "Mfold", folds = 3, nrepeat = 3) | ||
|
||
ground.ncomp <- matrix(c(2,1,2,2,1,2), ncol = 3, byrow=T, | ||
dimnames = list(c("overall", "BER"), | ||
c("max.dist", "centroids.dist", "mahalanobis.dist"))) | ||
|
||
expect_equal(out$choice.ncomp, ground.ncomp) | ||
}) | ||
|
||
test_that("does not allow for class with 1 associated sample", code = { | ||
data(liver.toxicity) | ||
X <- liver.toxicity$gene | ||
Y <- liver.toxicity$treatment$Dose.Group | ||
# create a class with one sample only | ||
Y[c(1)] <- 'random.class' | ||
|
||
res <- plsda(X, Y, ncomp = 2) | ||
|
||
expect_error(perf(res, validation = "Mfold", folds = 3, nrepeat = 3), | ||
"single assocaited") | ||
}) |