Man pages for genBaRcode
Analysis and Visualization Tools for Genetic Barcode Data
| asBCdat | Data Type Conversion |
| BC_dat | Barcode distribution of an example experiment. |
| BCdat-class | BCdat class. |
| BC_dat_EC | Barcode distribution of an example experiment. |
| com_pair | Compairing two BCdat Objects |
| createGDF | Creating a gdf File |
| dot-createPatternFile | Internal function |
| dot-generateColors | Color list generation |
| dot-getBarcodeFilter | Internal function |
| dot-getDiagonalIndex | Index Generation |
| dot-getMinDist | Distance calculation |
| dot-getWobblePos | getWobblePos |
| dot-hex2rgbColor | Converts hex colors into gephi usable rgb colors |
| dot-revComp | DNA string manipulation |
| dot-revComp_EqLength | DNA string manipulation for equal string sizes |
| dot-revComp_UneqLength | DNA string manipulation for unequal string sizes |
| dot-testDirIdentifier | Internal function |
| 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. |
