Commit f61f2c17 authored by Midoux Cedric's avatar Midoux Cedric
Browse files

mise en ligne des scripts

parent 6a79ffcb
This diff is collapsed.
library(shinydashboard)
shinyUI(dashboardPage(
dashboardHeader(title = "Easy16S"),
dashboardSidebar(
tags$div(
title = "Fichier d'abondance au format BIOM produit avec FROGS avec 'FROGS BIOM to std BIOM'",
fileInput(
"fileBiom",
label = h4("Fichier d'abondance :"),
placeholder = "data.biom"
),
radioButtons(
"biomFormat",
label = NULL,
inline = TRUE,
choices = list(`STD BIOM` = "std",
`FROGS BIOM` = "frogs"),
selected = "std"
)
),
tags$div(
style = "text-align:center",
title = "Rarefier les données avec un tirage aléatoire pour supprimer l'effet de la profondeur de séquençage",
checkboxInput("rareData", label = "Rarefier les donnees.", value = TRUE),
textOutput("rarefactionMin")
),
tags$div(
title = "Tableau de métadonnées avec en colonne les variables, en ligne les échantillons. \nAssurez vous de bien respecter l'ortographe des noms d'échantillons (1ère colonne). \nL'import d'une table excel est possible mais déconseillé.",
fileInput(
"fileMeta",
label = h4("Metadata :"),
placeholder = "data.csv"
)
),
radioButtons(
"CSVsep",
label = "CSV Séparateur",
inline = TRUE,
choices = list(
`<tab>` = "\t",
`,` = ",",
`;` = ";",
excel = "excel"
)
),
tags$div(
title = "Arbre phylogéniques des OTU enracinné",
fileInput(
"fileTree",
label = h4("Arbre :"),
placeholder = "data.nwk"
)
),
tags$div(
title = "Séquences FASTA des OTU",
fileInput(
"fileSeq",
label = h4("Séquences de references :"),
placeholder = "data.fasta"
)
)
),
dashboardBody(
tabsetPanel(
tabPanel(
"Summary",
verbatimTextOutput("phyloseqPrint"),
uiOutput("summaryTable")
),
tabPanel(
"Histo global",
plotOutput("histo", height = 700),
uiOutput("histUI")
),
tabPanel(
"Histo selectif",
plotOutput("histoFocus", height = 700),
box(
title = "Paramètres",
width = NULL,
status = "primary",
uiOutput("histFocusUIfocusRank"),
uiOutput("histFocusUIfocusTaxa"),
uiOutput("histFocusUIfocusNbTaxa"),
uiOutput("histFocusUIfocusGrid"),
uiOutput("histFocusUIfocusX")
)
),
tabPanel(
"Clustering",
plotOutput("clust", height = 700),
uiOutput("clustUI")
),
tabPanel("Richesse alpha", box(
width = NULL, tabsetPanel(
tabPanel(
"Courbes",
htmlOutput("rarefaction"),
plotOutput("richnessA", height = 700),
uiOutput("richnessAUI")
),
tabPanel("Tables", uiOutput("richnessATable"))
)
)),
tabPanel(
"Richesse beta",
selectInput(
"richnessBDist",
label = "Distance :",
choices = list(
"bray",
"jaccard",
"unifrac",
"wunifrac",
"dpcoa",
"jsd",
"euclidean"
)
),
box(width = NULL, tabsetPanel(
tabPanel(
"Heatmap",
plotOutput("richnessB", height = 700),
uiOutput("richnessBUI")
),
tabPanel(
"Networks",
plotOutput("networkB", height = 700),
uiOutput("networkBUI")
),
tabPanel("Tables", uiOutput("richnessBTable"))
))
),
tabPanel(
"Courbe de rarefaction",
plotOutput("rarefactionCurve", height = 700),
uiOutput("rarefactionCurveUI")
),
tabPanel(
"Arbre phylo",
plotOutput("tree", height = 700),
uiOutput("treeUI")
),
tabPanel(
"Heatmap",
plotOutput("Heatmap", height = 700),
uiOutput("HeatmapUI")
),
tabPanel("Analyses multivariées", plotOutput("acp", height = 700), uiOutput("acpUI")),
tabPanel(
"et plus ...",
div(
"Merci d'adresser vos remarques, bugs, demandes, besoins et conseils à ",
a(href = "mailto:cedric.midoux@irstea.fr?subject=[Easy16S]", "cedric.midoux@irstea.fr")
)
)
)
)
))
\ No newline at end of file
Markdown is supported
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment