select.ops

List of confirmed operons. See <code>compile.confirmed.operons</code>.

listOperons

Data table merging gene(s) and operon(s) annotations. See <code>join.genes.and.operons</code>.

genes.and.operons

Transcription levels for the coding regions. See <code>comp.gene.transc.levels</code>.

transcCDSs

Transcription levels for the intergenic regions (forard strand). See <code>comp.igr.transc.levels</code>.

transcIGRs.pos

Transcription levels for the intergenic regions (reverse strand). See <code>comp.igr.transc.levels</code>.

transcIGRs.neg

wseq

verbose


Build a data table containing confirmed operon pairs (OPs) and the feature values.


internal

An implementation of the computational strategy for the
comprehensive analysis of condition-dependent operon maps in prokaryotes
proposed by Fortino et al. (2014) <DOI:10.1186/1471-2105-15-145>.
It uses RNA-seq transcriptome profiles to improve prokaryotic operon map inference.

select.ops: Define a set of OPs which is used to train the operon classifier.

Description

Usage

Arguments