predictmiTargets: Predict the miRNA targets for the miRNA or mRNA genes, which...

In NoRCE: NoRCE: Noncoding RNA Sets Cis Annotation and Enrichment

Description

Predict the miRNA targets for the miRNA or mRNA genes, which is specified with type parameter

Usage

predictmiTargets(gene, type, org_assembly)

Arguments

gene	Data frame of miRNA or mRNA gene. Formats should be NCBI gene name, ENSEMBL gene or transcript id, and mirna
type	Format of the gene, it should be "NCBI" for NCBI gene name, "Ensembl_gene" for ENSEMBL gene id, "Ensembl_trans" for Ensembl transcript id and "mirna" for miRNA gene
org_assembly	Analyzed genome assembly. Possible assemblies are "mm10" for mouse, "dre10" for zebrafish, "rn6" for rat, "dm6" for fruit fly, "ce11" for worm, "hg19" and "hg38" for human

Value

miRNA:mRNA target sets of the given genes

Examples

a<- predictmiTargets(gene = brain_mirna[1:100,],
                     org_assembly = 'hg19',
                     type = "mirna")

NoRCE documentation built on Nov. 8, 2020, 7:17 p.m.