convert_org_into_seq    Converts a genome instruction sequence into a
                        digital organism file
convert_seq_into_org    Converts a genome instruction sequence into a
                        digital organism file
get_db_summary          Get database summary
get_docker_image_from_experiment_id
                        Get docker image from experiment
get_doi_from_experiment_id
                        Get doi from experiment
get_experiment_id_from_organism_id
                        Get experiment from organism
get_genome_id_from_genome_seq
                        Get genome from genome sequence
get_genome_id_from_logic_operation
                        Get genome from logic operations
get_genome_id_from_phenotype_id
                        Get genome from phenotype
get_genome_id_from_transcriptome_id
                        Get genome from transcriptome
get_genome_id_of_wild_type_organisms
                        Get genomes of wild-type organisms
get_genome_seq_from_genome_id
                        Get genome sequence from genome
get_logic_operation_from_phenotype_id
                        Get the logic operations computed by a digital
                        organism whose genome encodes a specific
                        phenotype
get_mutant_at_pos       Get single-point mutants of wild-type organisms
get_phenotype_id_from_genome_id
                        Get phenotype from genome
get_phenotype_id_from_genome_seq
                        Get phenotype from genome sequence
get_phenotype_id_from_logic_operation
                        Get phenotype from logic operations
get_phenotype_id_from_transcriptome_id
                        Get phenotype from transcriptome
get_tandem_id_from_genome_id
                        Get tandem repeat from genome
get_tandem_id_from_genome_seq
                        Get tandem repeat from genome sequence
get_tandem_id_from_logic_operation
                        Get tandem repeat from logic operations
get_tandem_id_from_phenotype_id
                        Get tandem repeat from phenotype
get_tandem_seq_from_tandem_id
                        Get the tandem repeat sequence from tandem
                        repeat
get_transcriptome_id_from_genome_id
                        Get transcriptome from genome
get_transcriptome_id_from_genome_seq
                        Get transcriptome from genome sequence
get_transcriptome_id_from_logic_operation
                        Get transcriptome from logic operations
get_transcriptome_id_from_phenotype_id
                        Get transcriptome from phenotype
get_transcriptome_seq_from_transcriptome_id
                        Get transcriptome sequence from transcriptome
instruction_set         Get the genetic language of Avida
logic_operation         Get the list of logic operations that a digital
                        organism can compute
plot_transcriptome      Get a plot of the transcriptome as a chord
                        diagram
triplestore_access      Class to manage triplestore access options
