groHMM (version 1.6.0)

evaluateHMMInAnnotations: evaluateHMM Evaluates HMM calling.

Description

Evaluates HMM calling of transripts compared to known annotations.

Usage

evaluateHMMInAnnotations(tx, annox)

Arguments

tx

GRanges of transcripts predicted by HMM.

annox

GRanges of non-overlapping annotatoins.

Value

a list of error information; merged annotations, dissociated annotation, total, and rate.

Examples

tx <- GRanges("chr7", IRanges(start=seq(100, 1000, by=200),
width=seq(100, 1000, by=100)), strand="+")
annox <- GRanges("chr7", IRanges(start=seq(110, 1100, by=150),
width=seq(100, 1000, by=150)), strand="+")
error <- evaluateHMMInAnnotations(tx, annox)