.createPatternFile      Internal function
.generateColors         Color list generation
.getBarcodeFilter       Internal function
.getDiagonalIndex       Index Generation
.getMinDist             Distance calculation
.getWobblePos           getWobblePos
.hex2rgbColor           Converts hex colors into gephi usable rgb
                        colors
.revComp                DNA string manipulation
.revComp_EqLength       DNA string manipulation for equal string sizes
.revComp_UneqLength     DNA string manipulation for unequal string
                        sizes
.testDirIdentifier      Internal function
BC_dat                  Barcode distribution of an example experiment.
BC_dat_EC               Barcode distribution of an example experiment.
BCdat-class             BCdat class.
asBCdat                 Data Type Conversion
com_pair                Compairing two BCdat Objects
createGDF               Creating a gdf File
errorCorrection         Error Correction
error_correction_circlePlot
                        Circle Plot
error_correction_clustered_HDs
                        Clustered HD Plot
error_correction_treePlot
                        Tree Plot
extractBarcodes         Barcode extraction
genBaRcode_app          Shiny App
generateKirchenplot     Plotting a Kirchenplot
generateTimeSeriesData
                        Generating Time Series Data Object
getBackbone             Accessing the Barcode Backbone slot of a BCdat
                        objects.
getBackboneSelection    Predefined Barcode Backbone Sequences
getLabel                Accessing the Label slot of a BCdat objects.
getReads                Accessing the Read-Count slot of a BCdat
                        objects.
getResultsDir           Accessing the Results Directory slot of a BCdat
                        objects.
ggplotDistanceGraph     Plotting a Distance Network
ggplotDistanceGraph_EC
                        Plotting a Distance Network (error correction)
hybridsIdentification   Identifies hybrid barcodes
plotClusterGgTree       Plotting a Cluster ggTree
plotClusterTree         Plotting a Cluster Tree
plotDistanceIgraph      Plotting a Distance Network
plotDistanceVisNetwork
                        Plotting a Distance Network
plotDistanceVisNetwork_EC
                        Plotting a Distance Network (error correction)
plotNucFrequency        Plotting Nucleotide Frequency
plotQualityScoreDis     Plotting Quality Score Distribution
plotQualityScorePerCycle
                        Plotting Quality Score per Cycle
plotReadFrequencies     Plotting a Barplot
plotSeqLogo             Plots a sequence logo
plotTimeSeries          Plotting Time Series Data
plotVennDiagram         Plotting a VennDiagram
prepareDatObject        Data Object Preparation
processingRawData       Data processing
qualityFiltering        Quality Filtering
readBCdat               Data Input
setBackbone             Replacing the Barcode Backbone slot of a BCdat
                        objects.
setLabel                Replacing the Label slot of a BCdat objects.
setReads                Replacing the Read-Count slot of a BCdat
                        objects.
setResultsDir           Replacing the Results Directory slot of a BCdat
                        objects.
