TRANSFAC Motif

class lightmotif.TransfacMotif

A motif loaded from a TRANSFAC file.

The TRANSFAC database stores motif information in an EMBL-like file that contains the count matrix for the motif, as well as optional metadata such as accession, description, creation date or bibliography.

accession

The accession of the motif, if any.

Type:

str or None

counts

The count matrix for this motif.

This may be None if the motif was loaded from a format that does not store counts but frequencies, such as the uniprobe format.

Type:

CountMatrix or None

description

The description of the motif, if any.

Type:

str or None

id

The identifier of the motif, if any.

Type:

str or None

name

An optional name for the motif.

Type:

str or None

protein

True if the motif is a protein motif.

Type:

bool

pssm

The scoring matrix for this motif.

Type:

ScoringMatrix

pwm

The weight matrix for this motif.

Type:

WeightMatrix