# A GUI for Dual and Bulk RNA-Sequencing Analysis

## Documentation for package ‘inDAGO’ version 1.0.3

- DESCRIPTION file.

## Help Pages

barplotExp | barplotExp
BaseAverageQualityPlot | BaseAverageQualityPlot
BaseAverageQualityPlotly | interactive BaseAverageQualityPlot
BaseCompositionAreaChartPlot | BaseCompositionAreaChartPlot
BaseCompositionLinePlot | BaseCompositionLinePlot
BaseQualityBoxplotPlot | BaseQualityBoxplotPlot
boxplotExp | boxplotExp
BulkAlignment | Bulk alignment function
checkMetadata | checkMetadata
CombinedAlignment | Combined alignment for dual RNA-seq
CorrPlotHeatmap | CorrPlotHeatmap
CorrPlotHeatmaply | CorrPlotHeatmaply
counting_Reads | COUNTING SEQUENCES
DEGsServerLogic | Server function for DEGs module in Shiny application
DEGsUserInterface | UI function for DEGs module in Shiny application
EDAServerLogic | Server function for EDA module in Shiny application
EDAUserInterface | UI function for EDA module in Shiny application
EdgerDEG | EdgerDEG
Filtering | Filtering
FilteringServerLogic | Server function for filtering module in Shiny application
FilteringUserInterface | UI function for filtering module in Shiny application
GCcontentDistributionPlot | GCcontentDistributionPlot
GCcontentDistributionPlotly | interactive GCcontentDistributionPlot
getDegMerged | getDegMerged
GetEdgerY | GetEdgerY
HeatmapExp | HeatmapExp
HeatmapExpPlotly | HeatmapExpPlotly
inDAGO | inDAGO
IndexingBulk | Bulk indexing
IndexingBulkServerLogic | Indexing bulk server logic
IndexingBulkUserInterface | Indexing bulk ui
IndexingComb | Combined indexing
IndexingCombinedServerLogic | Indexing combined server logic
IndexingCombinedUserInterface | Indexing combined ui
IndexingSequentialParallel | Indexing sequential parallel
IndexingSequentialProgressive | Indexing sequential progressive
IndexingSequentialServerLogic | Indexing sequential server logic
IndexingSequentialUserInterface | Indexing sequential ui
mappingBulkServerLogic | Mapping bulk server logic
mappingBulkUserInterface | Mapping bulk ui
mappingCombinedServerLogic | Mapping combined server logic
mappingCombinedUserInterface | Mapping combined ui
mappingSequentialServerLogic | Mapping sequential server logic
mappingSequentialUserInterface | Mapping sequential ui
mdsinfo | mdsinfo
mdsPlot | mdsPlot
mdsPlottly | mdsPlottly
pcainfo | pcainfo
pcaPlot | pcaPlot
pcaPlottly | pcaPlottly
QualityCheckAnalysis | QUALITY CONTROL ANALYSIS
qualityControlServerLogic | Quality control server logic
qualityControlUserInterface | Quality control ui
Saturation | Saturation
SequenceLengthDistributionPlot | SequenceLengthDistributionPlot
SequenceLengthDistributionPlotly | interactive SequenceLengthDistributionPlot
SequentialAlignment | Sequential alignment function
Summarization | Summarization
SummarizationServerLogic | Server function for Summarization module in Shiny application
SummarizationUserInterface | UI function for Summarization module in Shiny application
UpsetjsPlot | UpsetjsPlot
UpSetPlot | UpSetPlot
volcanoPlot | volcanoPlot
volcanoPlottly | volcanoPlottly
WorkflowServerLogic | Server function for workflow module in Shiny application
WorkflowUserInterface | UI function for workflow module in Shiny application