MicroRNA IDs to Clusters

Description

mirbaseCLUSTER is an R object that provides mappings between microRNA identifiers and other microRNA identifiers within a 10kb window ('genomic cluster').

Details

Each microRNA identifier maps to a vector of a microRNA identifiers belonging to a cluster (if any beyound itself). This information was computed ad-hoc as it is not included in the original data tables provided by mirbase.org.

Source: miRBase (Version: 19) ftp://mirbase.org/pub/mirbase/CURRENT/ With a date stamp from the source of: 01 Aug 2012

Examples

    x <- mirbaseCLUSTER
    # Get the first cluster containg more than one element
    clL <- eapply(x, length)
    id <- names(clL[clL > 1])[1]
    get(id, x)

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
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> library(mirbase.db)
Loading required package: AnnotationDbi
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, cbind, colnames, do.call, duplicated, eval, evalq,
    get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply,
    match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
    rbind, rownames, sapply, setdiff, sort, table, tapply, union,
    unique, unsplit

Loading required package: Biobase
Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: IRanges
Loading required package: S4Vectors

Attaching package: 'S4Vectors'

The following objects are masked from 'package:base':

    colMeans, colSums, expand.grid, rowMeans, rowSums

> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/mirbase.db/mirbaseCLUSTER.Rd_%03d_medium.png", width=480, height=480)
> ### Name: mirbaseCLUSTER
> ### Title: MicroRNA IDs to Clusters
> ### Aliases: mirbaseCLUSTER
> ### Keywords: data
> 
> ### ** Examples
> 
>     x <- mirbaseCLUSTER
>     # Get the first cluster containg more than one element
>     clL <- eapply(x, length)
>     id <- names(clL[clL > 1])[1]
>     get(id, x)
[1] "aae-mir-1174" "aae-mir-1175"
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>