Man pages for SimonSchafferer/short-ncrna-annotation
Non-coding RNA annotation package
| annotationGR-method | Accessor method annotationGR |
| annotationL-method | Accessor method annotationL |
| annotationMap-method | Accessor method annotationMap |
| annotationSummary-method | Summarize annotation |
| annotName-method | Accessor method annotName |
| calculateAlignmentCoverageTwoGRanges | Calculates the coverage of two GRanges objects |
| convertRangesToDF-method | Convert Ranges object to data frame |
| createRObject_gtf | Modifies the gtf file when downloaded from ensembl or ucsc by... |
| EnsemblAnnotation | Constructor method for Ranged Annotation class |
| EnsemblAnnotation-class | EnsemblAnnotation extends RangedAnnotation |
| executeAnnotation-method | executeAnnotation |
| feature_annotation_Function-method | feature_Annotation_ensembl helper function |
| getAnnotationByID-method | Fetch a specific annoation by ID |
| getFlatTable-method | Get Flat table of annotation for db storage |
| GRangesBasedAnnotation | Constructor method for Ranged Annotation class |
| GRangesBasedAnnotation-class | GRangesBasedAnnotation extends RangedAnnotation |
| importRangedAnnotation-method | Import Range dAnnotation |
| initialize-RangedAnnotation-method | Initialisation method for Ranged Annotation class |
| initialize-SequenceBasedAnnotation-method | Initialisation method for SequenceBasedAnnotation class |
| inputGR-method | Accessor method inputGR |
| loadLibraryGloballyAs | 'Loads an R object by a given name into the globalEnvironment |
| loadLibraryLocallyAs | Loads an R object by a given name and returns it |
| NcbiBlastAnnotation-class | NcbiBlastAnnotation Class |
| NcbiBlastAnnotation-method | Constructor method for NcbiBlastAnnotation class |
| protein_coding_AnnotationFunction-method | protein_coding_Annotation_ensembl helper function |
| RangedAnnotation | Constructor method for Ranged Annotation class |
| RangedAnnotation-class | Ranged Annotation Virtual Class, currently superclass of:... |
| RefSeqUCSCAnnotation | Constructor method for RefSeqUCSCAnnotation Annotation class |
| RefSeqUCSCAnnotation-class | RefSeqUCSCAnnotation extends RangedAnnotation |
| SequenceBasedAnnotation-class | SequenceBasedAnnotation Virtual Class, currently superclass... |
