ScanMiRAnno: ScanMiRAnno

In ETHZ-INS/scanMiRApp: scanMiR shiny application

ScanMiRAnno

Description

ScanMiRAnno

Usage

ScanMiRAnno(
  species = NULL,
  genome = NULL,
  ensdb = NULL,
  models = NULL,
  scan = NULL,
  aggregated = NULL,
  version = NULL,
  addDBs = list(),
  ...
)

Arguments

species	The species/build acronym for automatic construction; if omitted, 'genome' and 'ensdb' should be given. Current possible values are: GRCh38, GRCm38, GRCm39, Rnor_6.
genome	A BSgenome-class, or a TwoBitFile
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'

Value

A 'ScanMiRAnno' object

Examples

anno <- ScanMiRAnno(species="fake")
anno

ETHZ-INS/scanMiRApp documentation built on March 16, 2024, 5:30 p.m.