select.ops.indoor: Define the set of OPs annotated in DOOR.

In CONDOP: Condition-Dependent Operon Predictions

Description

Build a data table containing the transcriptomic/genomic feature values of operon pairs annotated in DOOR. The operon classifier trained/validated on the OPs and NOPs is used to predict the operon status of these gene pairs.

Usage

select.ops.indoor(genes.and.operons, transcCDSs, transcIGRs.pos, transcIGRs.neg,
  wseq, verbose = TRUE, ...)

Arguments

genes.and.operons	Data table merging gene(s) and operon(s) annotations. See join.genes.and.operons.
transcCDSs	Transcription levels for the coding regions. See comp.gene.transc.levels.
transcIGRs.pos	Transcription levels for the intergenic regions (forard strand). See comp.igr.transc.levels.
transcIGRs.neg	Transcription levels for the intergenic regions (reverse strand). See comp.igr.transc.levels.
wseq	Sequence genome.
verbose	Default logical value is TRUE.

Author(s)

Vittorio Fortino select.ops.indoor()

CONDOP documentation built on May 2, 2019, 1:26 p.m.