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Adapt to changes in geposan

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This commit is contained in:
Elias Projahn 2021-12-16 13:52:14 +01:00
parent f1337f0331
commit 2bf96ffd38
4 changed files with 61 additions and 86 deletions
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95
R/methods.R
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@ -2,7 +2,17 @@
methods_ui <- function(id) {
verticalLayout(
h3("Methods"),
div(style = "margin-top: 16px"),
selectInput(
NS(id, "optimization_target"),
"Optimization target",
choices = list(
"Mean rank of reference genes" = "mean",
"Median rank of reference genes" = "median",
"First rank of reference genes" = "min",
"Last rank of reference genes" = "max",
"Customize weights" = "custom"
)
),
lapply(methods, function(method) {
verticalLayout(
checkboxInput(
@ -22,12 +32,7 @@ methods_ui <- function(id) {
value = 1.0
)
)
}),
actionButton(
NS(id, "reset_button"),
"Reset weights",
class = "btn-primary"
)
})
)
}
@ -40,48 +45,56 @@ methods_server <- function(id, analysis) {
moduleServer(id, function(input, output, session) {
# Observe each method's enable button and synchronise the slider state.
lapply(methods, function(method) {
observeEvent(input[[method$id]],
{ # nolint
shinyjs::toggleState(sprintf("%s_weight", method$id))
},
ignoreInit = TRUE
)
observeEvent(c(input[[method$id]], input$optimization_target), {
shinyjs::toggleState(
sprintf("%s_weight", method$id),
condition = input$optimization_target == "custom" &
input[[method$id]]
)
})
})
observeEvent(
{ # nolint
analysis()
input$reset_button
},
{ # nolint
for (method in methods) {
updateCheckboxInput(
session,
method$id,
value = TRUE
)
updateSliderInput(
session,
sprintf("%s_weight", method$id),
value = analysis()$weights[[method$id]]
)
}
},
ignoreNULL = FALSE
)
reactive({
analysis <- analysis()
weights <- NULL
for (method in methods) {
if (input[[method$id]]) {
weight <- input[[sprintf("%s_weight", method$id)]]
weights[[method$id]] <- weight
if (input$optimization_target == "custom") {
for (method in methods) {
if (input[[method$id]]) {
weight <- input[[sprintf("%s_weight", method$id)]]
weights[[method$id]] <- weight
}
}
} else {
withProgress(message = "Optimizing weights", {
setProgress(0.2)
included_methods <- NULL
for (method in methods) {
if (input[[method$id]]) {
included_methods <- c(included_methods, method$id)
}
}
weights <- geposan::optimal_weights(
analysis,
included_methods,
analysis$preset$reference_gene_ids,
target = input$optimization_target
)
for (method_id in names(weights)) {
updateSliderInput(
session,
sprintf("%s_weight", method_id),
value = weights[[method_id]]
)
}
})
}
geposan::ranking(analysis(), weights)
geposan::ranking(analysis, weights)
})
})
}