| Title: | miRNA Affinity models for the scanMiR package |
|---|---|
| Description: | This package contains companion data to the scanMiR package. It contains `KdModel` (miRNA 12-mer binding affinity models) collections corresponding to all human, mouse and rat mirbase miRNAs. See the scanMiR package for details. |
| Authors: | Pierre-Luc Germain [cre, aut] (ORCID: <https://orcid.org/0000-0003-3418-4218>), Michael Soutschek [aut], Fridolin Gross [aut] |
| Maintainer: | Pierre-Luc Germain <[email protected]> |
| License: | GPL-3 |
| Version: | 1.18.0 |
| Built: | 2026-10-10 11:15:38 UTC |
| Source: | https://github.com/bioc/scanMiRData |
Returns a collection of miRNA KdModels for the requested species. Note that by default, low-confidence miRNAs are not returned (see 'categories').
getKdModels(species = c("hsa", "mmu", "rno"), categories = NULL)getKdModels(species = c("hsa", "mmu", "rno"), categories = NULL)
species |
Either "hsa" (human), "mmu" (mouse) or "rno" (rat) |
categories |
The categories of miRNAs to return. Any combination of "Low-confidence", "Poorly conserved", "Conserved across mammals", "Conserved across vertebrates". If NULL (default), all categories are returned. miRNAs with NA as conservation are not returned unless 'categories==NULL'. |
An object of class KdModelList
mods <- getKdModels("rno") summary(mods)mods <- getKdModels("rno") summary(mods)
A list of binding affinity models (KdModel) for human
('hsa'), mouse ('mmu'), or rat ('rno') miRbase 21.1 miRNAs. These represent
the miRNA 12-mer binding affinities predicted using the CNN from
McGeary, Lin et al. (2019).
a KdModelList list.
A list of binding affinity models (KdModel) for mouse
miRbase 21.1 miRNAs. These represent the miRNA 12-mer binding affinities
predicted using the CNN from McGeary, Lin et al. (2019).
a KdModelList list.
A list of binding affinity models (KdModel) for rat
miRbase 21.1 miRNAs. These represent the miRNA 12-mer binding affinities
predicted using the CNN from McGeary, Lin et al. (2019).
a KdModelList list.