ScanMiRAnno-class {scanMiRApp} | R Documentation |
ScanMiRAnno
ScanMiRAnno( species = NULL, genome = NULL, ensdb = NULL, models = NULL, scan = NULL, aggregated = NULL, version = NULL, addDBs = list(), ... )
species |
The species/build acronym for automatic construction; if omitted, 'genome' and 'ensdb' should be given. Current possible values are: GRCh38, GRCm38, Rnor_6. |
genome |
A BSgenome-class, or a
|
ensdb |
An EnsDb-class (or a TxDb-class) object |
models |
An optional KdModelList |
scan |
An optional full scan (IndexedFst or GRanges) |
aggregated |
An optional per-transcript aggregation (IndexedFst or data.frame) |
version |
optional ensembl version |
addDBs |
A named list of additional tx-miRNA databases, each of which should be a data.frame with the columns 'transcript', 'miRNA', and 'score'. |
... |
Arguments passed to 'AnnotationHub' |
A 'ScanMiRAnno' object
anno <- ScanMiRAnno(species="fake") anno