evaluateHMMInAnnotations: evaluateHMM Evaluates HMM calling.

In omsai/groHMM: GRO-seq Analysis Pipeline

Description

Evaluates HMM calling of transcripts compared to known annotations.

Usage

evaluateHMMInAnnotations(tx, annox)

Arguments

tx	GRanges of transcripts predicted by HMM.
annox	GRanges of non-overlapping annotations.

Value

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

Author(s)

Minho Chae

Examples

library(GenomicRanges)
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)

omsai/groHMM documentation built on May 24, 2019, 2:18 p.m.