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ui.R
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# Intervene: is a tool for intersection and visualization of multiple lists and genomic region sets
# Author: Aziz Khan <[email protected]>
# Date: January 30, 2017
#UI code for intervene
#====================================================#
## Sidebar content ####
#====================================================#
sidebar <- dashboardSidebar(
width = 150,
sidebarMenu(
menuItem("Dashboard", tabName = "main", icon = icon("dashboard")),
menuItem("Venn", tabName = "venn", icon = icon("venus-mars")),
menuItem("UpSet", tabName = "upset", icon = icon("bar-chart")),
menuItem("Pairwise", tabName = "pairwise", icon = icon("th"))
)
)
#====================================================#
## Dashboard Home ####
#====================================================#
bodyHome <- tabItem(tabName = "main", value="main_panel",
fluidRow(
shinydashboard::box(
tags$head(tags$link(rel="shortcut icon", href="favicon.ico")),
tags$script(src = "js/google-analytics.js"),
title = "Welcome to Intervene's Shiny App!", width = 12, status = "primary",
HTML("<b>Intervene Shiny App</b> provides an interactive interface for intersection and effective visualization
of gene or genomic region sets. Currently, Shiny app does not acccept genomic regions as input, but the text files
generated by Interve's <a href='https://bitbucket.org/CBGR/intervene' target='_blank'>command line interface</a> can be
easily uploaded to further explore and customize the plots in an interactive way.
Intervene has three modules: <i>venn</i> to generate Venn diagrams of up-to 6 sets, <i>upset</i> to generate
UpSet plots of more than 3 sets and <i>pairwise</i> to compute and visualize pariwise intersections as clustered heatmap.
")
)
),
fluidRow(
shinydashboard::box(
title = "Venn module", width = 4, status = "warning",
p("Intervene's venn module provides up-to 6-way classical, Chow-Ruskey and Edwards’ Euler/Venn diagrams to visualize the intersections of genomic regions or lists."),
#p("Using battle option one can generate up-to 9 sets."),
img(src='venn_module.png', align = "center", width="100%")
),
shinydashboard::box(
title = "UpSet module", width = 4,status = "warning",
p("Intervene’s UpSet modules can be used to visualize the intersection of multiple genomic region sets using UpSet plots."),
img(src='upset_module.png', align = "center", width="100%")
),
shinydashboard::box(
title = "Pairwise module", width = 4,status = "warning",
p("Intervene’s pairwise module provides several styles of heatmaps and clustering approaches to customize the heatmaps."),
img(src='pairwise_module.png', align = "center", width="100%")
)
),
fluidRow(
shinydashboard::box(
title = "Citation", width = 12, status = "success",
h4("If you use intervene, please cite this paper:"),
HTML("<h5>Khan A, Mathelier A. <a href='https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-017-1708-7' target='_blank'>Intervene: a tool for intersection and visualization of multiple gene or genomic region sets</a>. BMC Bioinformatics. 2017;18:287. doi: 10.1186/s12859-017-1708-7</h5>")
)
)
)
#====================================================#
## Venn module ####
#====================================================#
bodyVenn <- tabItem(tabName = "venn",
h2("Venn diagrams"),
fluidRow(
shinydashboard::box( title = "Data upload & settings", width = 4, status = "warning",
tabBox(
id = "venntab", height = "100%", width = "100%",
tabPanel("Upload",
fileInput(
'file_venn',
label = "Upload file",
accept = c(
'text/csv',
'text/comma-separated-values',
'text/tab-separated-values',
'.csv',
'.tsv'
)
),
checkboxInput('header_venn', label = 'Header', TRUE),
radioButtons(
'sep_venn',
label = 'Separator',
#inline = TRUE,
choices = c(
Comma = ',',
Tab = '\t',
Semicolon = ';'
),
selected = ','
),
br(),
HTML("<hr> <a href='Whyte_et_al_2013_SEs_genes.csv'> <i class='fa fa-download'> </i> List example data</a>")
#textAreaInput('venn_comb', label = "OR enter Venn combinations", rows = 4, placeholder = "Enter combinations of sets to plot"),
#p("For example: A=12, B=12, C=5, A&B=4, A&C=2, B&C=1, A&B&C=2"),
#tags$button(id="confirm_venn",
# type="button",
# class="btn action-button btn-large btn-primary",
# HTML('<i class="icon-star"></i> Plot Venn Diagram'))
),
tabPanel("Settings",
#add content
htmlOutput("venn_sets"),
selectInput(
"venn_type",
label = "Venn type",
choices = list("Classical" = "Classical",
"Chow-Ruskey" = "ChowRuskey",
"Edwards" = "AWFE",
"Squares" = "squares",
"Battle" = "battle"
),
selected = "ChowRuskey"),
checkboxInput('doWeights', label = "Weighted", value = TRUE),
checkboxInput('doEuler', label = "Eular", value = FALSE),
sliderInput(
"venn_lwd",
label = "Border line width",
value = 2.0,
min = 0.0,
max = 10.0,
ticks = TRUE,
step = 0.5),
selectInput('venn_lty', label="Border line type",
choices = list(
"Solid" = 1,
"Dashed" = 2,
"Dotted" = 3,
"Dot dash" = 4,
"Long dash" = 5,
"Two dash" = 6,
"Blank" = 0
),
selected = "1"
),
sliderInput(
"venn_size",
label = "Zoom in/out Venn diagram",
value = 500,
min = 200,
max = 1200,
ticks = FALSE,
step = 10)
#textInput("venn_title", label="Title: ", value="Venn diagram")
),
tabPanel("Font & Color",
selectInput('venn_color_type', label="Select color theme",
choices = list(
Set1 = "Set1",
#YlOrRd = "YlOrRd",
Custom = "custom"
),
selected = "Set1"
),
conditionalPanel(condition = "input.venn_color_type=='custom'",
fluidRow(
column(2,colourInput("set1_color", label = "Set1", value = "#E41A1C")),
column(2, colourInput("set2_color", label = "Set2", value = "#377EB8")),
column(2,colourInput("set3_color", label = "Set3", value = "#4DAF4A")),
column(2, colourInput("set4_color", label = "Set4", value = "#984EA3")),
column(2,colourInput("set5_color", label = "Set5", value = "#FF7F00")),
column(2, colourInput("set6_color", label = "Set6", value = "#FFFF33")))
),
numericInput(
"venn_labelsize",
label = "Label font size",
value = 15,
min = 1,
max = 50),
numericInput(
"venn_cex",
label = "Number font size",
value = 1.5,
min = 0.5,
max = 20)
#colourInput("addgrid_col", "Select grid colour", "#FAF5F5"),
#colourInput("rect_col", "Color for rectangle border(s)", "#17110F"),
#colourInput("tl_col", "Select label colour", "grey23")
)
)
),
shinydashboard::box(
status = "warning", width = 8,
tabBox(
# The id lets us use input$tabset1 on the server to find the current tab
id = "tabset1", height = "100%", width = "100%",
tabPanel("Venn diagram",
#htmlOutput('plot_text_p'),
plotOutput("vennPlot", width = "100%", height = "100%"),
shinydashboard::box(
width = NULL, status = "warning",
radioButtons(
inputId = "filetype_venn",
label = "Choose file type to download:",
inline = TRUE,
choices = list("PDF", "PNG","SVG","TIFF")),
downloadButton(outputId = "VennDown", label = "Download Plot")
)
),
tabPanel("Usage Instructions",
h4("Instructions for Venn diagram module"),
p("To use this venn module, you can upload a correctly formatted csv/text file, with lists of names.
Each column represents a set, and each row represents an element (names/gene/SNPs)."),
p("Before uploading the file, choose the correct separator, wheather the names in each column are
seperated by a ' , ' choose comma, by a ' ; ' choose semicolon, or by tabs choose tab."),
p("Header names (first row) will be used as set names."),
tags$a(href = "Whyte_et_al_2013_SEs_genes.csv", "Download demo data from Whyte et al. 2013 "),
HTML("<p>Intervene uses the <a href='https://github.com/js229/Vennerable' target='_blank'> Vennerable</a> to generate different Venn diagrams.</p>")
)
)
)
)
)
#====================================================#
## UpSet module ####
#====================================================#
bodyUpSet <- tabItem(tabName = "upset", value="upset_plot",
h2("UpSet plots"),
fluidRow(
shinydashboard::box(
status = "warning", width = 4,
tabBox(
# The id lets us use input$tabset1 on the server to find the current tab
id = "upset_plot", height = "100%", width = "100%",
tabPanel("Upload",
radioButtons('upset_input_type',
label ='Input type ',
choices = c(
"List of Genes/SNPs" = 'list',
"Binary data (0 & 1)" = 'binary'
),
selected = 'list'
),
fileInput(
'file1',
label = "Upload file",
accept = c(
'text/csv',
'text/comma-separated-values',
'text/tab-separated-values',
'.csv',
'.tsv'
)
),
checkboxInput('header', label = 'Header', TRUE),
radioButtons('sep',
label ='Separator',
choices = c(
Comma = ',',
Semicolon = ';',
Tab = '\t'
),
selected = ','
),
#actionButton("confirm_upset", "Plot UpSet"),
textAreaInput('upset_comb', label = "OR enter set combinations/expression", rows = 4, placeholder = "Enter combinations of sets to plot"),
p("For example: A=3, B=3, C=2, A&B=1, A&C=2, B&C=1 ,A&B&C=1"),
#actionLink("confirm_upset_demo", "Or load demo data")
HTML("<hr> <a href='Whyte_et_al_2013_SEs_genes.csv'> <i class='fa fa-download'> </i> List example data</a> | "),
HTML("<a href='mutations_glioblastoma_TCGA.csv'> <i class='fa fa-download'> </i> Binary example data</a>")
),
tabPanel("Settings",
#add content
htmlOutput("sets"),
numericInput(
"nintersections",
label = "Number of intersections to show",
value = 30,
min = 1,
max = 60),
selectInput(
"order",
label = "Order intersections by",
choices = list("Degree" = "degree",
"Frequency" = "freq"),
selected = "freq"),
selectInput(
"decreasing",
label = "Increasing/Decreasing",
choices = list("Increasing" = "inc",
"Decreasing" = "dec"),
selected = "dec"),
selectInput(
"scale.intersections",
label = "Scale intersections",
choices = list("Original" = "identity",
"Log10" = "log10",
"Log2" = "log2"),
selected = "identity"),
selectInput(
"scale.sets",
label = "Scale sets",
choices = list("Original" = "identity",
"Log10" = "log10",
"Log2" = "log2"),
selected = "identity"),
sliderInput(
"upset_width",
label = "Plot width",
value = 650,
min = 400,
max = 1200,
ticks = FALSE,
step = 10),
sliderInput(
"upset_height",
label = "Plot height",
value = 400,
min = 300,
max = 1000,
ticks = FALSE,
step = 10),
sliderInput(
"mbratio",
label = "Bar matrix ratio",
value = 0.30,
min = 0.20,
max = 0.80,
ticks = FALSE,
step = 0.01),
checkboxInput('show_numbers', label = "Show numbers on bars", value = TRUE),
sliderInput(
"angle",
label = "Angle of number on the bar",
min = -90,
max = 90,
value = 0,
step = 1,
ticks = F),
checkboxInput('empty', label = "Show empty intersections", value = FALSE),
checkboxInput('keep.order', label = "Keep set order", value = FALSE),
numericInput(
"pointsize",
label = "Connecting point size",
value = 2.5,
min = 1,
max = 10),
numericInput(
"linesize",
label = "Connecting line size",
value = 0.8,
min = 0.5,
max = 10)
),
tabPanel("Font & Colors",
colourInput("mbcolor", "Select main bar colour", "#ea5d4e"),
colourInput("sbcolor", "Select set bar colour", "#317eab"),
numericInput(
"intersection_title_scale",
label = "Font size of intersection size label",
value = 1.8,
min = 0.5,
max = 100),
numericInput(
"set_title_scale",
label = "Set size label font",
value = 1.8,
min = 0.5,
max = 100),
numericInput(
"intersection_ticks_scale",
label = "Intersection size ticks font",
value = 1.2,
min = 0.5,
max = 100),
numericInput(
"set_ticks_scale",
label = "Set Size ticks font",
value = 1.5,
min = 0.5,
max = 100),
numericInput(
"intersection_size_numbers_scale",
label = "Intersection Size Numbers font size",
value = 1.2,
min = 0.5,
max = 100),
numericInput(
"names_scale",
label = "Set Names font size",
value = 1.5,
min = 0.5,
max = 100
)
)
)
),
shinydashboard::box(
status = "warning", width = 8, height = "100%",
tabBox(
#title = "First tabBox",
# The id lets us use input$tabset1 on the server to find the current tab
id = "upsetplottab", height = "100%", width = "100%",
tabPanel("UpSet Plot",
htmlOutput('plot_text'),
plotOutput('plot1', width = "100%", height = "100%"),
shinydashboard::box(
width = NULL, status = "warning",
radioButtons(
inputId = "filetype",
label = "Choose file type to download:",
inline = TRUE,
choices = list("PDF", "PNG","SVG","TIFF")),
downloadButton(outputId = "UpSetDown", label = "Download Plot")
)
),
tabPanel("Usage Instructions",
h4("Instructions for UpSet plot module"),
p("To use this module you can upload a correctly formatted .csv or text file, encoded in binary."),
p("Before uploading the file, choose the correct separator, wheather the names in each column are
seperated by a ' , ' choose comma, by a ' ; ' choose semicolon, or by tabs choose tab. Header names (first row) will be used as set names."),
p("UpSet module takes three types of inputs."),
h4("List type data:"),
p("List data is a correctly formatted csv/text file, with lists of names.
Each column represents a set, and each row represents an element (names/gene/SNPs). Header names (first row) will be used as set names."),
tags$a(href = "Whyte_et_al_2013_SEs_genes.csv", "Download list of genes data from Whyte et al. 2013 "),
h4("Binary type data:"),
p("In the binary input file each column represents a set, and each row represents an element.
If a names is in the set then it is represented as a 1, else it is represented as a 0."),
HTML("Here is a sample <a href='mutations_glioblastoma_TCGA.csv'> mutations data set</a> from TCGA, which represents mutations for the 100 most mutated genes in a glioblastoma multiforme cohort. This file was downloaded from <a href='https://github.com/hms-dbmi/UpSetR/tree/master/inst/extdata' target='_blank'> here</a>"),
h4("Combination/expression type data:"),
p("Combination/expression type data is the possible combinations of set intersections. User can copy/past the combinations of intersection from the Intervene commnad line interface. For example;"),
p("H3K4me2&H3K4me3=16321,H3K4me2&H3K4me3&H3K27me3=5756,H3K27me3=25174,H3K4me3&H3K27me3=15539,H3K4me3=32964,H3K4me2&H3K27me3=19039,H3K4me2=60299,H3K27ac&H3K4me2&H3K4me3&H3K27me3=7235,H3K27ac&H3K4me2&H3K4me3=17505,H3K27ac&H3K4me2=21347,H3K27ac&H3K4me2&H3K27me3=1698,H3K27ac&H3K4me3=8134,H3K27ac&H3K4me3&H3K27me3=295,H3K27ac&H3K27me3=7605,H3K27ac=42164"),
HTML("<p>Intervene uses the <a href='https://cran.r-project.org/package=UpSetR' target='_blank'> UpSetR</a> R package for visualization.</p>")
)
)
)
)
)
#====================================================#
## Pairwise module ####
#====================================================#
bodyPairwise <- tabItem(tabName = "pairwise",
h2("Pairwise intersection heatmap"),
fluidRow(
shinydashboard::box( title = "Data upload & settings", width = 4, status = "warning",
tabBox(
id = "pairwisetab", height = "100%", width = "100%",
tabPanel("Upload",
radioButtons('pairwise_input_type',
label ='Input type ',
choices = c(
"Matrix" = 'matrix',
"List of Genes/SNPs" = 'list'
),
selected = 'matrix'
),
fileInput(
'file_p',
label = "Upload file",
accept = c(
'text/csv',
'text/comma-separated-values',
'text/tab-separated-values',
'.csv',
'.tsv'
)
),
checkboxInput('header_p', label = 'Header', TRUE),
radioButtons(
'sep_p',
label = 'Separator',
choices = c(
Tab = "\t",
Comma = ",",
Semicolon = ";"
),
selected = "\t"
),
br(),
HTML("<hr> <a href='frac_pairwise_matrix_Khan_et_al_2016.txt'> <i class='fa fa-download'> </i> Matrix example data</a> | "),
HTML("<a href='Whyte_et_al_2013_SEs_genes.csv'> <i class='fa fa-download'> </i> List example data</a> | ")
),
tabPanel("Settings",
selectInput(
"plotType", label= "Plot type",
choices = list("Heatmap.2" = "heatmap.2",
"Corrplot" = "corrplot"),
selected = 'heatmap.2'),
selectInput(
"corp_cor",
label = "Correlation Coefficient",
choices = list("Non" = "non",
"Pearson" = "pearson",
"Kendall" = "kendall",
"Spearman" = "spearman"
),
selected = "non"),
conditionalPanel(condition = "input.plotType == 'corrplot'",
selectInput(
"corp_method",
label = "Heatmap method",
choices = list("Color" = "color",
"Pie" = "pie",
"Circle" = "circle",
"Square" = "square",
"Ellipse" = "ellipse",
"Number" = "number",
"Shade" = "shade"
),
selected = "color"),
selectInput(
"corp_type",
label = "Heatmap type",
choices = list("Full" = "full",
"Lower" = "lower",
"Upper" = "upper"
),
selected = "full"),
selectInput(
"corp_order",
label = "Heatmap order",
choices = list("Hierarchical clustering" = "hclust",
"Eigenvectors" = "AOE",
"Principal component" = "FPC",
#"Alphabetical order" = "alphabet",
"Original" = "original"
),
selected = "hclust"),
selectInput(
"tl_pos",
label = "Position of text labels",
choices = list("Left and top" = "lt",
#"Left and diagonal" = "ld",
#"Top and diagonal" = "td",
"Diagonal" = "d",
"Do not show" = "n"
),
selected = "lt"),
selectInput(
"cl.pos",
label = "Position of colorlabel",
choices = list("Right" = "r",
"Bottom" = "b",
"Don't show" = "n"
),
selected = "r"),
checkboxInput('corp_diag', label = "Show diagonal", value = FALSE)
),
selectInput(
"hclust_method",
label = "Agglomeration method for hclust",
choices = list(
"ward.D" = "ward.D",
"ward.D2" = "ward.D2",
"Single" = "single",
"Complete" = "complete",
"Average" = "average",
"Mcquitty" = "mcquitty",
"Median" = "median",
"Centroid" = "centroid"
),
selected = "complete"),
numericInput(
"addrect",
label = "No. of clusters for hclust",
value = 3,
min = 1,
max = 25
),
conditionalPanel(condition = "input.plotType == 'heatmap.2'",
selectInput(
"distance",
label = "Distance Matrix Computation",
choices = list(
"None" = "none",
"Euclidean" = "euclidean",
"Manhattan" = "manhattan",
"Canberra" = "canberra",
"Minkowski" = "minkowski"
),
selected = "euclidean"),
selectInput(
"dendrogram",
label = "Dendrogram",
choices = list(
"Both" = "both",
"Row" = "row",
"Column" = "column",
"None" = "none"
),
selected = "both"),
checkboxInput('symm', label = "X is a symmetric matrix", value = FALSE),
checkboxInput('key', label = "Show/hide color-key", value = TRUE),
conditionalPanel(condition = "input.key == true",
sliderInput("keysize",
label = h5("Size of the key"),
value = 1.2,
min = 1,
max = 10,
ticks = TRUE,
step = 0.1),
textInput("key.title", "Key title: ", value="Color key"),
textInput("key.xlab", "Key x-axis label: ", value="Value"),
textInput("key.ylab", "Key y-axis label: ", value="Count")
)
),
textInput("corp_title", "Title: ", value="Pairwise intersection"),
sliderInput(
"heatmap_size",
label = h5("Zoom in & out Heatmap"),
value = 500,
min = 200,
max = 1200,
ticks = FALSE,
step = 10)
),
tabPanel("Font & Color",
selectInput('color_type', label="Select theme",
choices = list(
RdYlBu = "RdYlBu",
YlOrRd = "YlOrRd",
Custom = "custom"
),
selected = "RdYlBu"
),
conditionalPanel(condition = "input.color_type=='custom'",
fluidRow(
column(4,colourInput("lower_colour", label = "Lower", value = "#6a011f")),
column(4, colourInput("middle_colour", label = "Middle", value = "#FFFFFF")),
column(4, colourInput("higher_colour", label = "Higher", value = "#08376a")))
),
numericInput(
"tl.cex",
label = "Size of text label",
value = 0.8,
min = 0.3,
step = 0.1,
max = 50
),
numericInput(
"tl.srt",
label = "Text label rotation in degrees",
value = 90,
min = 0,
step = 5,
max = 180
),
numericInput(
"cl.cex",
label = "Size of colorlabel text",
value = 0.8,
min = 0.3,
step = 0.1,
max = 10
),
colourInput("addgrid_col", "Select grid colour", "#FAF5F5"),
colourInput("rect_col", "Color for rectangle border(s)", "#17110F"),
colourInput("tl_col", "Select label colour", "grey23")
)
)
),
shinydashboard::box(
status = "warning", width = 8,
tabBox(
#title = "First tabBox",
# The id lets us use input$tabset1 on the server to find the current tab
id = "tabset1", height = "100%", width = "100%",
tabPanel("Heatmap",
htmlOutput('plot_text_p'),
conditionalPanel(condition = "input.plotType == 'corrplot'",
plotOutput("corrplotHM", width = "100%", height = "100%")
),
conditionalPanel(condition = "input.plotType == 'heatmap.2'",
plotOutput("heatmap2_plot_out", width = "100%", height = "100%")
),
shinydashboard::box(
width = NULL, status = "warning",
radioButtons(
inputId = "filetype_heatmap",
label = "Choose file type to download:",
inline = TRUE,
choices = list("PDF", "PNG","SVG","TIFF")),
conditionalPanel(condition = "input.plotType == 'heatmap.2'",
downloadButton(outputId = "Heatmap2PlotDown", label = "Download Plot"),
br()
),
conditionalPanel(condition = "input.plotType == 'corrplot'",
downloadButton(outputId = "HeatmapDown", label = "Download Plot"),
br()
)
)
),
tabPanel("Interactive heatmap",
conditionalPanel(condition = "input.plotType == 'heatmap.2'",
d3heatmapOutput("d3HM"),
br(),
downloadButton(outputId = "HeatmapHTMLDown", label = "Download HTML")
),
conditionalPanel(condition = "input.plotType == 'corrplot'",
h4("Note: Interactive heatmap is only available for Heatmap.2 plot type.")
)
),
tabPanel("Data table",
div(style = 'overflow-x: scroll', DT::dataTableOutput("pairwiseTable", width = "100%")),
br(),
downloadButton(outputId = "HeatmapCSVDown", label = "Download CSV")
),
tabPanel("Usage Instructions",
h4("Instructions for pairwise heatmap module"),
p("To use pairwise module, you can upload a pairwise matrix file in .csv/txt format.
Each column and row represents pairwise fraction of overlap/count etc between different names/genomic region sets."),
p("Before uploading the file, choose the correct separator, wheather the matrix file is
seperated by a ' , ' choose comma, by a ' ; ' choose semicolon, or by tabs choose tab."),
p("Pairwise module takes input of two types:"),
h4("List type data:"),
p("List data is a correctly formatted csv/text file, with lists of names.
Each column represents a set, and each row represents an element (names/gene/SNPs). Header names (first row) will be used as set names."),
tags$a(href = "Whyte_et_al_2013_SEs_genes.csv", "Download list of genes data from Whyte et al. 2013 "),
h4("Pairwise matrix data:"),
p("A pairwise matrix type data is a matrix of size NxN (all pairwise combinations) with values as number/fraction of overlap between two corresponding sets.
For genomic region sets user can use the commpnad line interface of Intervene and upload the generated matrix here as matrix type."),
HTML("For example here is the <a href = 'frac_pairwise_matrix_Khan_et_al_2016.txt'> demo data </a> generated by Intervene's command line interfacce for super-enhancers(SEs) of different cell/tissue-types from dbSUPER."),
HTML("<p>Intervene uses the <a href='https://cran.r-project.org/package=corrplot' target='_blank'> Corrplot</a> and <a href='https://cran.r-project.org/package=plotly' target='_blank'> plotly</a> R packages to plot heatmap</p>")
)
)
)
)
)
## Body content ####
shinyUI(dashboardPage(
title="Intervene - an interactive Shiny app for UpSet plots, Venn diagrams and Pairwise heatmaps",
#tags$header(tags$script(src = "js/google-analytics.js")),
skin = "black",
dashboardHeader(
# Set height of dashboardHeader
title = tags$a(href='https://asntech.shinyapps.io/intervene/',
tags$img(src='intervene_logo.png', height = "90%")),
titleWidth = 150),
sidebar,
dashboardBody(
tabItems(
bodyHome,
#Venn plots
bodyVenn,
#UpSet Plots
bodyUpSet,
#Pairwise heatmap
bodyPairwise
)
)
))