johrpan/geposanui
1
0
Fork 0
mirror of https://github.com/johrpan/geposanui.git synced 2025-10-26 19:27:24 +01:00
Code Issues Projects Releases Packages Wiki Activity Actions

Supply custom background for enrichment

Browse source
This commit is contained in:
Elias Projahn 2022-07-01 12:38:46 +02:00
parent a3164ece43
commit 6db14c4d4a
1 changed files with 11 additions and 5 deletions
Download patch file Download diff file Expand all files Collapse all files

16
R/server.R
View file

@ -214,10 +214,13 @@ server <- function(options) {
value = 0.0,
{ # nolint
setProgress(0.2)
gprofiler2::gost(results_filtered()[, gene])
gprofiler2::gost(
results_filtered()[, gene],
custom_bg = preset()$gene_ids
)
}
)
})
}) |> bindCache(results_filtered(), preset())
output$gost_plot <- plotly::renderPlotly({
gprofiler2::gostplot(
@ -272,11 +275,14 @@ server <- function(options) {
{ # nolint
setProgress(0.2)
gene_names <- results_filtered()[, name]
gene_names <- unique(gene_names[gene_names != ""])
all_gene_names <- unique(results()[name != "", name])
filtered_gene_names <- unique(results_filtered()[name != "", name])
diseases <- suppressMessages(
disgenet2r::disease_enrichment(gene_names)
disgenet2r::disease_enrichment(
all_gene_names,
custom_universe = list(filtered_gene_names)
)
)
data <- data.table(diseases@qresult)