ScanMiRAnno: ScanMiRAnno

Description Usage Arguments Value Examples

View source: R/scanMiRAnno.R

Description

ScanMiRAnno

Usage

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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

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

ETHZ-INS/scanMiRApp documentation built on Jan. 20, 2022, 5:51 p.m.