getMiRNASequence: Get the miRNA sequences

In xtsvm/miRBaseConverter: A comprehensive and high-efficiency tool for converting and retrieving the information of miRNAs in different miRBase versions

Description

This function returns the miRNA sequences for a list of miRNAs.

Usage

getMiRNASequence(Accessions, targetVersion = "v21")

Arguments

Accessions	A character vector representing the miRNA Accessions in miRBase.
targetVersion	A character value representing the target miRBase version corresponding the Accessions. Users can apply the function getAllVersionInfo() to get the available miRNA version names. The optional values are in below: "v6","v7_1","v8","v8_1","v8_2","v9","v9_1","v9_2","v10","v10_1","v11","v12","v13","v14", "v15","v16","v17","v18","v19","v20","v21"

Value

A nx2 data frame. The number of row equals to input miRNAs. The two columns are defined as below:

• Accession : The original miRNA (Column 1).
  

• miRNASequence_{targetVersion} : The return miRNA sequence (in specified version) corresponding to the input miRNAs (Column 2).
  

Author(s)

Xu, Taosheng [e-mail]

Examples

#####1, The input are miRNA Accessions
data(miRNATest)
Accessions=miRNATest$Accession
result1=getMiRNASequence(Accessions,targetVersion="v13")
result2=getMiRNASequence(Accessions,targetVersion="v21")

#####2, The input are miRNA Names
data(miRNATest)
miRNANames=miRNATest$miRNA_Name
result3=miRNAVersionConvert(miRNANames,targetVersion="v21",exact=TRUE)
Accessions=result3[,3]
result4=getMiRNASequence(Accessions,targetVersion="v21")

xtsvm/miRBaseConverter documentation built on May 20, 2019, 5:08 p.m.