https://github.com/ctlab/phantasus
Tip revision: 196f3db2382e89502f3d95664a7f0bee36af7287 authored by Alexey Sergushichev on 20 July 2020, 21:37:31 UTC
version bump
version bump
Tip revision: 196f3db
testgseaPlot.R
context("GSEA plot")
library(jsonlite)
library(Biobase)
test_that("gseaPlot works", {
load(file = system.file("testdata/GSE27112-GPL6103.rda", package="phantasus"))
set.seed(42)
fData(es)$t <- rnorm(nrow(es))
f <- fromJSON(gseaPlot(es, rankBy = "t", selectedGenes = sample.int(nrow(es), 10),
width=6, height=4))
expect_true(file.exists(f))
f <- fromJSON(gseaPlot(es, rankBy = "t", selectedGenes = sample.int(nrow(es), 10),
width=6, height=4, vertical = TRUE))
expect_true(file.exists(f))
f <- fromJSON(gseaPlot(es, rankBy = "t", selectedGenes = sample.int(nrow(es), 10),
width=6, height=4, vertical = TRUE,
addHeatmap = TRUE, showAnnotation = "time"))
expect_true(file.exists(f))
f <- fromJSON(gseaPlot(es, rankBy = "t", selectedGenes = sample.int(nrow(es), 10),
width=6, height=4, vertical = FALSE,
addHeatmap = TRUE, showAnnotation = "time"))
expect_true(file.exists(f))
f <- fromJSON(gseaPlot(es, rankBy = "t", selectedGenes = sample.int(nrow(es), 10),
width=6, height=4, vertical = FALSE,
addHeatmap = TRUE))
expect_true(file.exists(f))
})
test_that("gseaPlot with heatmap works for single column", {
load(file = system.file("testdata/GSE27112-GPL6103.rda", package="phantasus"))
es <- es[, 1]
set.seed(42)
fData(es)$t <- rnorm(nrow(es))
f <- fromJSON(gseaPlot(es, rankBy = "t", selectedGenes = sample.int(nrow(es), 10),
width=6, height=4, addHeatmap = TRUE))
expect_true(file.exists(f))
})