miRNA

require(GCModeller);

#' miRNA/siRNA target gene prediction toolkit
imports "miRNA" from "TRNtoolkit";

miRNA/siRNA target gene prediction toolkit

This R# package module provides the toolkit for predict the target genes of the miRNA/siRNA small RNA sequence:

• psRNATarget and TargetFinder: create the miRNA target site match algorithm object;

• miRNA_targets: run the target site match of the given miRNA sequence against the candidate target mRNA/CDS sequence collection;

• intersect_targets: take the intersection of the two algorithm result for create the high confidence target site set.

the generated match result is a collection of the @T:SMRUCC.genomics.Analysis.SequenceAlignment.siRNAHit.siRNAHit object, which can be converted to a data frame via the as.data.frame api, or be saved as a csv table file via the write.csv api.