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| basejump-package | basejump |
| aggregateFeatures | Aggregate Features |
| aggregateFeatures-method | Aggregate Features |
| aggregateReplicates | Aggregate Replicates |
| aggregateReplicates-method | Aggregate Replicates |
| annotable | Ensembl Annotations |
| annotable-method | Ensembl Annotations |
| assignAndSaveData | Assign and Save Data |
| basejump | basejump |
| camel | Camel Case |
| camel-method | Camel Case |
| checkAnnotable | Check Ensembl Annotations |
| checkGene2symbol | Check Gene to Symbol Mapping Data |
| checkTx2gene | Check Transcript to Gene Mapping Data |
| collapseToString | Collapse to String |
| collapseToString-method | Collapse to String |
| convertGenesToSymbols | Convert Ensembl Identifier to Gene Symbol |
| convertGenesToSymbols-method | Convert Ensembl Identifier to Gene Symbol |
| convertTranscriptsToGenes | Convert Ensembl Transcripts to Genes |
| convertTranscriptsToGenes-method | Convert Ensembl Transcripts to Genes |
| detectHPC | Detect HPC Environment |
| detectOrganism | Detect Organism |
| detectOrganism-method | Detect Organism |
| dots | Extract Dots from Function |
| dots-method | Extract Dots from Function |
| dotted | Dotted Case |
| dotted-method | Dotted Case |
| dynamicPlotlist | Dynamic Plotlist |
| dynamicPlotlist-method | Dynamic Plotlist |
| fixNA | Fix Character Strings Missing 'NA' |
| fixNA-method | Fix Character Strings Missing 'NA' |
| foldChangeToLogRatio | Interconvert Log Ratio and Fold Change Values |
| foldChangeToLogRatio-method | Interconvert Log Ratio and Fold Change Values |
| gene2symbol | Ensembl Gene to Symbol Mappings |
| gene2symbol-method | Ensembl Gene to Symbol Mappings |
| gene2symbolFromGFF | Define Gene to Symbol Mappings from GFF/GTF File |
| gene2symbolFromGFF-method | Define Gene to Symbol Mappings from GFF/GTF File |
| gene2symbolFromGTF | Define Gene to Symbol Mappings from GFF/GTF File |
| geomean | Geometric Mean |
| geometricMean | Geometric Mean |
| geometricMean-method | Geometric Mean |
| grepString | 'grep' String Generator |
| grepString-method | 'grep' String Generator |
| kables | Create Tables in LaTeX, HTML, Markdown and reStructuredText |
| kables-method | Create Tables in LaTeX, HTML, Markdown and reStructuredText |
| loadData | Load Local Data |
| loadDataAsName | Load Data File as Name |
| loadRemoteData | Load Remote Data |
| localOrRemoteFile | Dynamically Handle a Local or Remote File Path |
| logRatio | Interconvert Log Ratio and Fold Change Values |
| logRatioToFoldChange | Interconvert Log Ratio and Fold Change Values |
| logRatioToFoldChange-method | Interconvert Log Ratio and Fold Change Values |
| markdownHeader | Markdown Header |
| markdownHeader-method | Markdown Header |
| markdownList | Markdown List |
| markdownList-method | Markdown List |
| markdownPlotlist | Markdown Plotlist |
| markdownPlotlist-method | Markdown Plotlist |
| mdHeader | Markdown Header |
| mdList | Markdown List |
| mdPlotlist | Markdown Plotlist |
| microplate | Microtiter Plate Well Identifiers |
| midnightTheme | Midnight Theme |
| multiassignAsNewEnvir | Assign Multiple Objects as a New Environment |
| plotHeatmap | Plot Heatmap |
| plotHeatmap-method | Plot Heatmap |
| plotQuantileHeatmap | Plot Heatmap with Quantile Breaks |
| plotQuantileHeatmap-method | Plot Heatmap with Quantile Breaks |
| readFileByExtension | Read File by Extension |
| readFileByExtension-method | Read File by Extension |
| readGFF | Read GFF/GTF Annotations |
| readGFF-method | Read GFF/GTF Annotations |
| readGTF | Read GFF/GTF Annotations |
| readYAML | Read YAML File |
| readYAML-method | Read YAML File |
| removeNA | Remove Rows and Columns Containing Only 'NA' Values |
| removeNA-method | Remove Rows and Columns Containing Only 'NA' Values |
| sanitizeAnnotable | Sanitize Ensembl Annotations |
| saveData | Save Data |
| snake | Snake Case |
| snake-method | Snake Case |
| sortUnique | Quickly Perform Sort Unique on a Vector |
| sortUnique-method | Quickly Perform Sort Unique on a Vector |
| stripTranscriptVersions | Strip Transcript Versions |
| stripTranscriptVersions-method | Strip Transcript Versions |
| symbol2gene | Convert Gene Symbol to Ensembl Identifier |
| symbol2gene-method | Convert Gene Symbol to Ensembl Identifier |
| toStringUnique | Convert to a Unique Character String |
| toStringUnique-method | Convert to a Unique Character String |
| transmit | Transmit Files from a Remote FTP Server |
| tx2gene | Transcript to Gene Mappings |
| tx2gene-method | Transcript to Gene Mappings |
| tx2geneFromGFF | Define Transcript to Gene Mappings from GFF/GTF File |
| tx2geneFromGFF-method | Define Transcript to Gene Mappings from GFF/GTF File |
| tx2geneFromGTF | Define Transcript to Gene Mappings from GFF/GTF File |
| upperCamel | Camel Case |
| upperCamel-method | Camel Case |
| writeCounts | Write Counts |