| 1 | 1 |
new file mode 100644 |
| ... | ... |
@@ -0,0 +1,80 @@ |
| 1 |
+pp <- faahko_poplin |
|
| 2 |
+y <- factor(colData(pp)$sample_group, levels = c("WT", "KO"))
|
|
| 3 |
+ |
|
| 4 |
+test_that("poplin_naplot works", {
|
|
| 5 |
+ expect_error(poplin_naplot(pp, xin = "raw"), NA) |
|
| 6 |
+ |
|
| 7 |
+ m <- poplin_raw(pp, "raw") |
|
| 8 |
+ expect_error(poplin_naplot(m), NA) |
|
| 9 |
+ |
|
| 10 |
+ expect_error(poplin_naplot(m, label = TRUE), NA) |
|
| 11 |
+}) |
|
| 12 |
+ |
|
| 13 |
+test_that("poplin_corplot works", {
|
|
| 14 |
+ expect_error(poplin_corplot(pp, xin = "knn"), NA) |
|
| 15 |
+ |
|
| 16 |
+ m <- poplin_data(pp, "knn") |
|
| 17 |
+ expect_error(poplin_corplot(m), NA) |
|
| 18 |
+ |
|
| 19 |
+ expect_error(poplin_corplot(m, label = TRUE), NA) |
|
| 20 |
+}) |
|
| 21 |
+ |
|
| 22 |
+test_that("poplin_boxplot works", {
|
|
| 23 |
+ expect_error(poplin_boxplot(pp, xin = "knn", pre_log2 = TRUE), NA) |
|
| 24 |
+ |
|
| 25 |
+ m <- poplin_data(pp, "knn") |
|
| 26 |
+ expect_error(poplin_boxplot(m, pre_log2 = TRUE), NA) |
|
| 27 |
+ |
|
| 28 |
+ expect_error(poplin_boxplot(m, group = y, pre_log2 = FALSE, ylab = "I"), NA) |
|
| 29 |
+}) |
|
| 30 |
+ |
|
| 31 |
+test_that("poplin_scoreplot works", {
|
|
| 32 |
+ |
|
| 33 |
+ ## PCA |
|
| 34 |
+ expect_error(poplin_scoreplot(pp, xin = "pca", group = y), NA) |
|
| 35 |
+ |
|
| 36 |
+ m <- poplin_reduced(pp, "pca") |
|
| 37 |
+ expect_error(poplin_scoreplot(m, group = y, label = TRUE), NA) |
|
| 38 |
+ |
|
| 39 |
+ expect_error(poplin_scoreplot(m, group = y, label = TRUE, ellipse = TRUE), NA) |
|
| 40 |
+ |
|
| 41 |
+ ## t-SNE |
|
| 42 |
+ expect_error(poplin_scoreplot(pp, xin = "tsne", group = y), NA) |
|
| 43 |
+ |
|
| 44 |
+ m <- poplin_reduced(pp, "tsne") |
|
| 45 |
+ expect_error(poplin_scoreplot(m, group = y, label = TRUE), NA) |
|
| 46 |
+ |
|
| 47 |
+ expect_error(poplin_scoreplot(m, group = y, label = TRUE, ellipse = TRUE, |
|
| 48 |
+ xlab = "X"), NA) |
|
| 49 |
+ |
|
| 50 |
+ ## PLS-DA |
|
| 51 |
+ expect_error(poplin_scoreplot(pp, xin = "plsda"), NA) |
|
| 52 |
+ |
|
| 53 |
+ m <- poplin_reduced(pp, "plsda") |
|
| 54 |
+ expect_error(poplin_scoreplot(m, group = y, label = TRUE), NA) |
|
| 55 |
+ |
|
| 56 |
+ expect_error(poplin_scoreplot(m, group = y, label = TRUE, ellipse = TRUE, |
|
| 57 |
+ legend = FALSE), NA) |
|
| 58 |
+}) |
|
| 59 |
+ |
|
| 60 |
+test_that("poplin_biplot works", {
|
|
| 61 |
+ |
|
| 62 |
+ ## PCA |
|
| 63 |
+ expect_error(poplin_biplot(pp, xin = "pca", group = y), NA) |
|
| 64 |
+ |
|
| 65 |
+ m <- poplin_reduced(pp, "pca") |
|
| 66 |
+ expect_error(poplin_biplot(m, group = y, label = TRUE), NA) |
|
| 67 |
+ |
|
| 68 |
+ expect_error(poplin_biplot(m, group = y, label = TRUE, |
|
| 69 |
+ arrow_label = FALSE), NA) |
|
| 70 |
+ |
|
| 71 |
+ ## PLS-DA |
|
| 72 |
+ expect_error(poplin_biplot(pp, xin = "plsda", group = y), NA) |
|
| 73 |
+ |
|
| 74 |
+ m <- poplin_reduced(pp, "plsda") |
|
| 75 |
+ expect_error(poplin_biplot(m, group = y, label = TRUE), NA) |
|
| 76 |
+ |
|
| 77 |
+ expect_error(poplin_biplot(m, group = y, label = TRUE, |
|
| 78 |
+ arrow_col = "orange"), NA) |
|
| 79 |
+ |
|
| 80 |
+}) |
