align-class: Class "align"

In rGADEM: de novo motif discovery

Description

This object contains the individual motifs identified but also the location (seqID and position) of the sites in the original sequence data. It also included the spaced dyad from which the motifs is derived, PWM score p-value cuttoff for the run.

Objects from the Class

Objects can be created by calls of the form new("align", ...).

Slots

seq

:Motif identified .

chr

:Chromosome identified.

start

:Sequence start.

end

:Sequence end.

strand

:Strand position.

seqID

:Sequence identification.

pos

:Position identification.

pval

:p-Value for each identification.

fastaHeader

:Fasta accession.

Author(s)

Arnaud Droit [e-mail]

See Also

gadem , motif, parameters

Examples

showClass("align")

rGADEM documentation built on Nov. 8, 2020, 8:01 p.m.