3.1.1.2.1.6. etfl.core.genes

ME-related Reaction subclasses and methods definition

3.1.1.2.1.6.1. Module Contents

3.1.1.2.1.6.1.1. Classes

ExpressedGene	This calss represents the genes that can be transcribed
CodingGene	This calss represents the genes that can be translated into protein

3.1.1.2.1.6.1.2. Functions

make_sequence(sequence)

seq_type must be an instance of DNAAphabet(), RNAAlphabet, or ProteinAlphabet

ETFL.make_sequence(sequence)

seq_type must be an instance of DNAAphabet(), RNAAlphabet, or ProteinAlphabet :param sequence: :param seq_type: :return:

class ETFL.ExpressedGene(id, name, sequence, copy_number=1, transcribed_by=None, min_tcpt_activity=0, *args, **kwargs)

Bases: cobra.Gene

This calss represents the genes that can be transcribed

property copy_number(self)

property transcribed_by(self)

property rna(self)

property min_tcpt_activity(self)

class ETFL.CodingGene(id, name, sequence, min_tnsl_activity=0, translated_by=None, *args, **kwargs)

Bases: ExpressedGene

This calss represents the genes that can be translated into protein

property translated_by(self)

property peptide(self)

property min_tnsl_activity(self)

static from_gene(gene, sequence)

This method clones a cobra.Gene object into an CodingGene, and attaches a sequence to it

Parameters

• gene (cobra.Gene) – the gene to reproduce

• sequence – a string-like dna sequence

Returns

an CodingGene object