Man pages for refGenome
Gene and Splice Site Annotation Using Annotation Data from 'Ensembl' and 'UCSC' Genome Browsers
| addIsCoding | Add information on coding/non-coding status. |
| ensemblGenome-class | Class '"ensemblGenome"' |
| extractByGeneID | Extract subsets of refGenome by gene-ID. |
| extractByGeneName | Extract subsets of refGenome by gene-name. |
| geneList-class | Class '"geneList"' |
| geneModel-class | Class '"geneModel"' |
| getGeneId | Extract gene ID from gene-name and getGeneId. |
| getGenePositions | Extract subsets of refGenome by gene-name. |
| overlap | overlap function |
| overlapJuncs | overlapJuncs function |
| readGtf | Reading and parsing GTF files into refGenome objects. |
| refExons-class | Class '"refExons"' |
| refGenome-class | Class '"refGenome"' |
| refGenome-package | Managing annotation data for reference Genomes from UCSC and... |
| refJunctions-class | Class '"refJunctions"' |
| saveGenome | Saving and loading 'refGenome' objects |
| transcriptModel-class | Class '"transcriptModel"' |
| ucscGenome-class | Class '"ucscGenome"' |
| unifyJuncs | Unification of splice-junctions. |
| unifyRanges | Unification of Exonic ranges. |
| writeDB | Saving and loading 'refGenome' objects to and from SQLite... |
