Hello 
I'm new to r and shiny and don't know a lot. But I want to ask if it is possible to define an Input as an DNAString.. For the Input you have to add a DNA Sequence in FASTA-Format like TCTAGAT
For the Output I want it in reverse and compliment --> ATCTAGA
therefore i can use
reverseCompliment(DNAString("TCTAGAT"))
or define x <- DNAString("TCTAGAT")
and use reverseCompliment(x)
but I can not use DNAString("input$...)
Here is my code... (input$bip should be reverse and complement)!!!
library(shiny)
library(shinythemes)
Definiere UI
ui <- fluidPage(theme = shinytheme("sandstone"),
# Titel
navbarPage("",
# Tab 1
tabPanel("",
# Eingabefeld
sidebarPanel(width = 12,
# Textfeld zum Einfügen des Gens
tags$h4("Gensequenz:"),
textInput("gen", "FASTA-Format", "", placeholder = "Sequenz hier einfügen..."),
# Textfeld zum Einfügen des FIP-Primers
tags$h4("Primersequenzen:"),
textInput("fip", "FIP-Primer", "", placeholder = "Primersequenz einfügen"),
# Textfeld zum Einfügen des BIP-Primers
textInput("bip", "BIP-Primer", "", placeholder = "Primersequenz einfügen"),
), # sidebarPanel
# Ausgabefelder
mainPanel(
h3("Position der Primer"),
h5("FIP-Primer"),
verbatimTextOutput("fippos"),
h5("BIP-Primer"),
verbatimTextOutput("bippos"),
h3("Länge der Zielsequenz"),
h5("Anzahl Basen"),
verbatimTextOutput("s"),
h3("GC-Gehalt"),
h5("Anzahl GC"),
verbatimTextOutput("gc"),
h5("GC-Gehalt in %"),
verbatimTextOutput("prozent"),
), # mainPanel
), # tabPanel 1
) # navbarPage
) # fluidPage
Server Funktion
server <- function(input, output) {
output$fippos <- renderText({
(str_locate ( input$gen , input$fip ))
})
output$bippos <- renderText({
(str_locate ( input$gen , input$bip))
})
output$s <- renderText({
(nchar( input$gen ))
})
output$gc <- renderText({
((lengths(regmatches(input$gen, gregexpr("G", input$gen, ignore.case = TRUE))))
+(lengths(regmatches(input$gen, gregexpr("C", input$gen, ignore.case = TRUE)))))
})
output$prozent <- renderText({
round(
((((lengths(regmatches(input$gen, gregexpr("G", input$gen, ignore.case = TRUE))))
+(lengths(regmatches(input$gen, gregexpr("C", input$gen, ignore.case = TRUE)))))
/(nchar( input$gen )))*100)
,2)
})
} # server
Shiny-App erstellen
shinyApp(ui = ui, server = server)
Thank you alot