Man pages for THJlab/seqNdisplayR
A Tool for Customizable and Reproducible Plotting of Sequencing Coverage Data
| AdjustColorPhi | Adjust Color Phi |
| AdjustEstimatedPlotHeights | Adjust Estimated Plot Heights |
| AlignBasicPlotParameters | Align Basic Plot Parameters |
| allempty | All Empty |
| AnnotatedFeaturesInRegion | Annotated Features In Region |
| BasicPlotParameters | Basic Plot Parameters |
| BuildScrutinizePlotSegmentOrder | Build Scrutinize Plot Segment Order |
| CalculateTrackHeight | Calculate Track Height |
| ChangeColorLightness | Change Color Lightness |
| CommonPrefix | Common Prefix |
| ConnectIVs | Connect Intervals |
| ConstantsDefaults | Constants and Defaults |
| ConvertCollapsedFormat | Convert Collapsed Format |
| ConvertColor | Convert Color |
| CoordsOfFeatName | Coords Of Feat Name |
| CoordsOfGenomicScale | Coords Of Genomic Scale |
| DefaultAnnotationOptions | Default Annotation Options |
| DefaultParameters | Default Parameters |
| DefaultPlotOptions | Default Plot Options |
| DeleteNULLs | Delete NULLs |
| DeparseOption | Deparse Option |
| Empty2Null | Empty 2 Null |
| EmptyDf | Empty Df |
| EstimatePlotHeights | Estimate Plot Heights |
| EvaluateNumericValue | Evaluate Numeric Value |
| ExamplesSampleSheetsFolder | Examples Sample Sheets Folder |
| FillDf | Fill Df |
| FinalizePanelsDimensions | Finalize Panels Dimensions |
| FinalizePlottingSegmentOrder | Finalize Plotting Segment Order |
| FinalOrganizedAnnotationTextsInPlottedRegion | Final Organized Annotation Texts In Plotted Region |
| FindNonoverlappingIVs | Find Nonoverlapping Intervals |
| ForceScaleList | Force Scale List |
| GetAnnotations | Get Annotations |
| GetBigwigDirs | Get Bigwig Dirs |
| GetBigwigs | Get Bigwigs |
| GetBinSize | Get Bin Size |
| GetColors | Get Colors |
| GetParameters | Get Parameters |
| GetPlotOptions | Get Plot Options |
| GetSamples | Get Samples |
| GlimpseSession | Glimpse Session |
| HandleForcedScaleFromParameters | Handle Forced Scale From Parameters |
| Hex2Hsl | Hex2Hsl |
| HorizontalPanelsList | Horizontal Panels List |
| Hsl2Hex | Hsl2Hex |
| IsColor | Is Color |
| isempty | Is Empty |
| ListDepth | List Depth |
| ListExamplesSampleSheets | List Examples Sample Sheets |
| LoadAndTransformDataForTrack | Load And Transform Data For Track |
| LoadExcel | Load Excel |
| LoadIGVSession | Load IGV Session |
| LoadTracks | Load Tracks |
| NumberingSpacers | Numbering Spacers |
| OpenOptionsTable | Open Options Table |
| OrderedSplit | Ordered Split |
| OrganizeAllAnnotationTextsInPlottedRegion | Organize All Annotation Texts In Plotted Region |
| OrganizeAnnotatedFeaturesInRegion | Organize Annotated Features In Region |
| OrganizeAnnotationText | Organize Annotation Text |
| OrganizedPanelsList | Organized Panels List |
| OrganizeOverlappingIVs | Organize Overlapping Intervals |
| OrganizeOverlappingLoci | Organize Overlapping Loci |
| OrganizePanelsDimensions | Organize Panels Dimensions |
| PanelFontSizeList | Panel Font Size List |
| ParseOption | Parse Option |
| PlotAnnotation | Plot Annotation |
| PlotData | Plot Data |
| PlotHeader | Plot Header |
| PlotHeightParameters | Plot Height Parameters |
| PlotMatrix | Plot Matrix |
| PlotPanels | Plot Panels |
| PlotScale | Plot Scale |
| PlotSegment | Plot Segment |
| plot.seqNdisplayRSession | plot seq'N'display'R Session |
| PlotSpacer | Plot Spacer |
| PlottingSegmentOrder | Plotting Segment Order |
| PlotVerticalParameters | Plot Vertical Parameters |
| PlotWidths | Plot Widths |
| PreparePlottingInterface | Prepare Plotting Interface |
| PrintOutput | Print Output |
| print.seqNdisplayRSession | print seq'N'display'R Session |
| ReadInAnnotations | Read In Annotations |
| RecommendedFontSizes | Recommended Font Sizes |
| RegionGRanges | Region GRanges |
| RelativeAnnotationHeight | RelativeAnnotationHeight |
| run_seqNdisplayR_app | run seq'N'display'R app |
| ScrutinizeExpandAndNameParameter | Scrutinize Expand And Name Parameter |
| SegmentTop | Segment Top |
| seqNdisplay | seq'N'display |
| seqNdisplayRSession | seq'N'display'R Session |
| Session2Df | Session 2 Df |
| Session2xlsx | Session2xlsx |
| SortUnlistedSampleNames | Sort Unlisted Sample Names |
| UnpackSamples | Unpack Samples |
| UpdatePlotVerticalParameters | Update Plot Vertical Parameters |
| UpdateTrackVector | Update Track Vector |
| YParameters | Y Parameters |
