A GUI for Dual and Bulk RNA-Sequencing Analysis
barplotExp
BaseAverageQualityPlot
interactive BaseAverageQualityPlot
BaseCompositionAreaChartPlot
BaseCompositionLinePlot
BaseQualityBoxplotPlot
boxplotExp
Bulk alignment function
checkMetadata
Combined alignment for dual RNA-seq
CorrPlotHeatmap
CorrPlotHeatmaply
COUNTING SEQUENCES
Server function for DEGs module in Shiny application
UI function for DEGs module in Shiny application
Server function for EDA module in Shiny application
UI function for EDA module in Shiny application
EdgerDEG
Filtering
Server function for filtering module in Shiny application
UI function for filtering module in Shiny application
GCcontentDistributionPlot
interactive GCcontentDistributionPlot
getDegMerged
GetEdgerY
HeatmapExp
HeatmapExpPlotly
inDAGO
Bulk indexing
Indexing bulk server logic
Indexing bulk ui
Combined indexing
Indexing combined server logic
Indexing combined ui
Indexing sequential parallel
Indexing sequential progressive
Indexing sequential server logic
Indexing sequential ui
Mapping bulk server logic
Mapping bulk ui
Mapping combined server logic
Mapping combined ui
Mapping sequential server logic
Mapping sequential ui
mdsinfo
mdsPlot
mdsPlottly
pcainfo
pcaPlot
pcaPlottly
QUALITY CONTROL ANALYSIS
Quality control server logic
Quality control ui
Saturation
SequenceLengthDistributionPlot
interactive SequenceLengthDistributionPlot
Sequential alignment function
Summarization
Server function for Summarization module in Shiny application
UI function for Summarization module in Shiny application
UpsetjsPlot
UpSetPlot
volcanoPlot
volcanoPlottly
Server function for workflow module in Shiny application
UI function for workflow module in Shiny application
A 'shiny' app that supports both dual and bulk RNA-seq, with the dual RNA-seq functionality offering the flexibility to perform either a sequential approach (where reads are mapped separately to each genome) or a combined approach (where reads are aligned to a single merged genome). The user-friendly interface automates the analysis process, providing step-by-step guidance, making it easy for users to navigate between different analysis steps, and download intermediate results and publication-ready plots.