intersect_targets {miRNA} R Documentation

--- High-confidence intersection (psRNATarget ∩ TargetFinder) ---

Description

Usage

intersect_targets(psRNATarget, TargetFinder,
    site.tolerance = 3);

Arguments

psRNATarget

the target site match result of the psRNATarget algorithm, which is a collection of the siRNAHit data.

TargetFinder

the target site match result of the TargetFinder algorithm, which is a collection of the siRNAHit data.

site.tolerance

the coordinate alignment tolerance(in nt) of the target site location on the mRNA sequence: two match result will be treated as the same target site if their site interval is overlapped with each other in this tolerance range, by default is 3nt. [as integer]

env

the R# runtime environment object. [as Environment]

Details

Authors

TRNtoolkit

Value

a vector of the siRNAHit high confidence target site data: the match result that is reported by both of the psRNATarget and the TargetFinder algorithm.

the merged site data of each target site: the Source property is marked as Intersection(psRNATarget+TargetFinder), the StartSite/EndSite property is the union range of the two algorithm result, the MismatchCount/WobbleCount/GapCount property is the max value of the two algorithm result, the TranslationInhibition property is TRUE when any of the two algorithm result is a translation inhibition candidate, and the Alignment property contains the expectation value of the psRNATarget and the penalty score of the TargetFinder;

this function returns a R# error message object if the input data can not be cast to a collection of the siRNAHit data.

clr value class

Examples

[Package miRNA version 1.0.0.0 Index]