Organism, taxonomy and microbiome queries: parameters and notes¶

See the tutorial for usage and examples.

Each function includes its purpose, API, inputs, outputs, example code and result description. Prepare any required credentials, local files and optional dependencies; remote results vary with database releases and query time.

Retrieve Drosophila gene details¶

dnakit.databases.fly_base_get_gene(*, gene_id, verbose=True)

Parameter	Type	Required / default	Description and constraints
`gene_id`	string	Required	FlyBase gene ID with 'FB:' prefix. Examples: 'FB:FBgn0003996' (white/w), 'FB:FBgn0000490' (decapentaplegic/dpp), 'FB:FBgn0004647' (Notch/N), 'FB:FBgn0000546' (eyeless/ey), 'FB:FBgn0003731' (hedgehog/hh).
`verbose`	bool	True	Progress flag.

Retrieve Drosophila gene alleles and phenotypes¶

dnakit.databases.fly_base_get_gene_alleles(*, gene_id, limit=None, page=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`gene_id`	string	Required	FlyBase gene ID with 'FB:' prefix. Examples: 'FB:FBgn0003996' (white/w), 'FB:FBgn0000490' (dpp), 'FB:FBgn0004647' (Notch/N).
`limit`	integer	None	Maximum number of alleles to return (1-100). Default: 20.
`page`	integer	None	Page number for pagination. Default: 1.
`verbose`	bool	True	Progress flag.

Retrieve Drosophila gene disease models¶

dnakit.databases.fly_base_get_gene_disease_models(*, gene_id, limit=None, page=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`gene_id`	string	Required	FlyBase gene ID with 'FB:' prefix. Examples: 'FB:FBgn0000490' (dpp), 'FB:FBgn0004647' (Notch/N), 'FB:FBgn0003996' (white/w).
`limit`	integer	None	Maximum number of disease models to return (1-100). Default: 20.
`page`	integer	None	Page number for pagination. Default: 1.
`verbose`	bool	True	Progress flag.

Retrieve Drosophila developmental and anatomical expression¶

dnakit.databases.fly_base_get_gene_expression(*, gene_id, limit=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`gene_id`	string	Required	FlyBase gene ID, with or without the 'FB:' prefix. Examples: 'FB:FBgn0000490' (dpp), 'FB:FBgn0003996' (white/w), 'FB:FBgn0004647' (Notch/N).
`limit`	integer	None	Max annotations to return (default 50, max 100).
`verbose`	bool	True	Progress flag.

Retrieve Drosophila molecular and genetic interactions¶

dnakit.databases.fly_base_get_gene_interactions(*, gene_id, interaction_type=None, limit=None, page=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`gene_id`	string	Required	FlyBase gene ID with 'FB:' prefix. Examples: 'FB:FBgn0003996' (white/w), 'FB:FBgn0000490' (dpp), 'FB:FBgn0004647' (Notch/N).
`interaction_type`	string	None	Type of interaction: 'molecular' (physical PPI) or 'genetic' (phenotype-based). Default: 'molecular'.
`limit`	integer	None	Maximum number of interactions to return (1-100). Default: 20.
`page`	integer	None	Page number for pagination. Default: 1.
`verbose`	bool	True	Progress flag.

Retrieve cross-species orthologs of a Drosophila gene¶

dnakit.databases.fly_base_get_gene_orthologs(*, gene_id, limit=None, page=None, stringency=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`gene_id`	string	Required	FlyBase gene ID with 'FB:' prefix. Examples: 'FB:FBgn0004647' (Notch/N), 'FB:FBgn0003996' (white/w), 'FB:FBgn0000546' (eyeless/ey).
`limit`	integer	None	Maximum number of orthologs to return (1-100). Default: 20.
`page`	integer	None	Page number for pagination. Default: 1.
`stringency`	string	None	Stringency filter for orthology calls: 'stringent' (high confidence) or 'moderate'. Default: 'stringent'.
`verbose`	bool	True	Progress flag.

Search integrated Drosophila genomics records¶

dnakit.databases.fly_mine_search(*, q, size=None, format=None, facet_Category=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`q`	string	Required	Search query: gene symbol (e.g., 'dpp', 'Notch', 'hedgehog'), protein name, domain name, or free text.
`size`	integer	None	Number of results to return (default: 10, max: 100).
`format`	string	None	Response format. Must be 'json'.
`facet_Category`	string	None	Filter by entity category. Options: 'Gene', 'Protein', 'Publication', 'ProteinDomain', 'CDNAClone', 'GOTerm', 'InteractionExperiment', 'RNAiScreen', 'UniProtFeature'.
`verbose`	bool	True	Progress flag.

Retrieve GBIF species details by taxon key¶

dnakit.databases.gbif_get_species(*, speciesKey, verbose=True)

Parameter	Type	Required / default	Description and constraints
`speciesKey`	integer	Required	GBIF species/taxon key. Examples: 2435099 (Puma concolor / puma), 2878688 (Quercus robur / English oak), 5219404 (Canis lupus / wolf), 2480528 (Homo sapiens), 2495662 (Aquila chrysaetos / golden eagle). Use GBIF_search_species to find keys.
`verbose`	bool	True	Progress flag.

Search GBIF species names and taxonomy¶

dnakit.databases.gbif_search_species(*, query, limit=None, offset=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`query`	string	Required	Query keyword, e.g., Homo
`limit`	integer	None	Maximum results for the current request, not a database-wide total.
`offset`	integer	None	Pagination offset within the current query.
`verbose`	bool	True	Progress flag.

Retrieve GTDB species clusters and their genomes¶

dnakit.databases.gtdb_get_species(*, operation=None, species, max_genomes=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`operation`	string	None	Operation type (fixed: get_species)
`species`	string	Required	Species name WITHOUT the s__ prefix (e.g., 'Escherichia coli', 'Hydrogenothermus marinus', 'Bacillus subtilis')
`max_genomes`	integer	None	Maximum number of genomes to return (default: 20). Species clusters can have thousands of genomes.
`verbose`	bool	True	Progress flag.

Retrieve GTDB taxonomy and release history¶

dnakit.databases.gtdb_get_taxon_info(*, operation=None, taxon, verbose=True)

Parameter	Type	Required / default	Description and constraints
`operation`	string	None	Operation type (fixed: get_taxon_info)
`taxon`	string	Required	GTDB taxon name with rank prefix (e.g., 'f__Lachnospiraceae', 'd__Bacteria', 'g__Escherichia', 's__Escherichia coli'). Use GTDB_search_taxon to find valid names.
`verbose`	bool	True	Progress flag.

Search prokaryotic genomes by organism name¶

dnakit.databases.gtdb_search_genomes(*, operation=None, query, page=None, items_per_page=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`operation`	string	None	Operation type (fixed: search_genomes)
`query`	string	Required	Search query for organism name (e.g., 'Escherichia', 'Staphylococcus aureus', 'Lactobacillus')
`page`	integer	None	Page number for pagination (default: 1)
`items_per_page`	integer	None	Number of results per page (default: 10, max: 50)
`verbose`	bool	True	Progress flag.

Search prokaryotic taxa by partial name¶

dnakit.databases.gtdb_search_taxon(*, operation=None, query, limit=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`operation`	string	None	Operation type (fixed: search_taxon)
`query`	string	Required	Partial taxon name to search for (e.g., 'Lachnospiraceae', 'Escherichia', 'Bacillota'). Case-insensitive.
`limit`	integer	None	Maximum number of results per rank (default: 20, max: 100)
`verbose`	bool	True	Progress flag.

Retrieve mouse gene details by MGI identifier¶

dnakit.databases.mgi_get_gene(*, gene_id, verbose=True)

Parameter	Type	Required / default	Description and constraints
`gene_id`	string	Required	MGI gene identifier with 'MGI:' prefix. Examples: 'MGI:98834' (Trp53/p53), 'MGI:104537' (Brca1), 'MGI:96677' (Kit), 'MGI:88039' (Apoe), 'MGI:88276' (Braf).
`verbose`	bool	True	Progress flag.

Retrieve mouse gene mutant phenotype annotations¶

dnakit.databases.mgi_get_phenotypes(*, gene_id, limit=None, page=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`gene_id`	string	Required	MGI gene identifier with 'MGI:' prefix. Examples: 'MGI:98834' (Trp53), 'MGI:104537' (Brca1), 'MGI:96677' (Kit).
`limit`	integer	None	Number of phenotype annotations to return per page (default: 20, max: 100).
`page`	integer	None	Page number for pagination (default: 1).
`verbose`	bool	True	Progress flag.

Search mouse genes by name or keyword¶

dnakit.databases.mgi_search_genes(*, query, limit=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`query`	string	Required	Gene search query: mouse gene symbol (e.g., 'Trp53', 'Brca1', 'Sox9'), gene name keyword (e.g., 'insulin', 'tumor'), or MGI ID (e.g., 'MGI:98834').
`limit`	integer	None	Maximum number of results to return (default: 10, max: 50).
`verbose`	bool	True	Progress flag.

Retrieve microbial genome quality and taxonomy¶

dnakit.databases.mgnify_get_genome(*, genome_id, verbose=True)

Parameter	Type	Required / default	Description and constraints
`genome_id`	string	Required	MGnify genome accession. Examples: 'MGYG000000001', 'MGYG000535630'.
`verbose`	bool	True	Progress flag.

Retrieve GO annotations from a metagenomics analysis¶

dnakit.databases.mgnify_get_go_terms(*, analysis_id, page_size=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`analysis_id`	string	Required	MGnify analysis accession (e.g., 'MGYA00585482'). Find IDs via MGnify_list_analyses.
`page_size`	integer	None	Number of GO terms to return per page (default 25, max 100).
`verbose`	bool	True	Progress flag.

Retrieve metagenomic protein domain annotations¶

dnakit.databases.mgnify_get_interpro(*, analysis_id, page_size=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`analysis_id`	string	Required	MGnify analysis accession (e.g., 'MGYA00585482'). Find IDs via MGnify_list_analyses.
`page_size`	integer	None	Number of InterPro entries to return per page (default 25, max 100).
`verbose`	bool	True	Progress flag.

Retrieve MGnify metagenomics study details¶

dnakit.databases.mgnify_get_study_detail(*, study_accession, verbose=True)

Parameter	Type	Required / default	Description and constraints
`study_accession`	string	Required	MGnify study accession. Examples: 'MGYS00002008', 'MGYS00005292'.
`verbose`	bool	True	Progress flag.

Retrieve metagenomic taxonomic composition and abundance¶

dnakit.databases.mgnify_get_taxonomy(*, analysis_id, rna_type=None, page_size=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`analysis_id`	string	Required	MGnify analysis accession (e.g., 'MGYA00585482'). Find IDs via MGnify_list_analyses.
`rna_type`	string	None	rRNA marker type: 'ssu' for 16S/18S (default) or 'lsu' for 23S/28S.
`page_size`	integer	None	Number of taxa to return per page (default 25, max 100).
`verbose`	bool	True	Progress flag.

List analyses belonging to a metagenomics study¶

dnakit.databases.mgnify_list_analyses(*, study_accession, size=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`study_accession`	string	Required	MGnify study accession, e.g., 'MGYS00000001'
`size`	integer	None	Limit for the returned page; does not automatically retrieve later pages.
`verbose`	bool	True	Progress flag.

Browse the metagenomics biome hierarchy¶

dnakit.databases.mgnify_list_biomes(*, depth=None, page=None, page_size=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`depth`	integer	None	Hierarchy depth to filter by (1=root, 2=second level, etc.).
`page`	integer	None	Page number (default 1).
`page_size`	integer	None	Results per page (default 25, max 100).
`verbose`	bool	True	Progress flag.

Search metagenome-assembled and isolate genomes¶

dnakit.databases.mgnify_search_genomes(*, taxonomy=None, page=None, page_size=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`taxonomy`	string	None	GTDB taxonomy lineage filter, matched anywhere in the lineage. Examples: 'Bacteroidota' (phylum), 'Bacteroides' (genus), 'Bacillota', 'Pseudomonadota'. NCBI-style phylum names such as 'Bacteroidetes' or 'Firmicutes' return few or no hits -- use the GTDB spelling.
`page`	integer	None	Page number (default 1).
`page_size`	integer	None	Results per page (default 25, max 100).
`verbose`	bool	True	Progress flag.

Search metagenomics studies by biome and keyword¶

dnakit.databases.mgnify_search_studies(*, biome=None, search=None, size=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`biome`	string	None	Biome lineage identifier, e.g., 'root:Host-associated' or 'root:Host-associated:Human:Digestive system'
`search`	string	None	Keyword to search in study title/description
`size`	integer	None	Limit for the returned page; does not automatically retrieve later pages.
`verbose`	bool	True	Progress flag.

Search global plant names and taxonomy¶

dnakit.databases.powo_search_plants(*, q, f=None, perPage=None, cursor=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`q`	string	Required	Search query. Can be scientific name, common name, genus, or family. Examples: 'rosa canina', 'orchid', 'Asteraceae', 'oak'
`f`	string \| null	None	Filter facets (comma-separated). Common filters: 'species_f:true' (species only), 'accepted_names:true' (only accepted names). Example: 'species_f:true'
`perPage`	integer \| null	None	Results per page (default 24, max 500)
`cursor`	string \| null	None	Pagination cursor from previous response
`verbose`	bool	True	Progress flag.

Retrieve rat gene disease, phenotype and functional annotations¶

dnakit.databases.rgd_get_annotations(*, rgd_id, aspect=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`rgd_id`	string	Required	RGD gene ID (e.g., '2218' for Brca1)
`aspect`	string	None	Filter by annotation type: 'D' (Disease), 'P' (Pathway), 'W' (Phenotype), 'F' (Function), 'C' (Component), 'E' (Expression). Leave empty for all.
`verbose`	bool	True	Progress flag.

Retrieve rat gene details by RGD identifier¶

dnakit.databases.rgd_get_gene(*, rgd_id, verbose=True)

Parameter	Type	Required / default	Description and constraints
`rgd_id`	string	Required	RGD gene ID (numeric, e.g., '2218' for Brca1). Can include 'RGD:' prefix.
`verbose`	bool	True	Progress flag.

Retrieve cross-species orthologs of a rat gene¶

dnakit.databases.rgd_get_orthologs(*, rgd_id, verbose=True)

Parameter	Type	Required / default	Description and constraints
`rgd_id`	string	Required	RGD gene ID (e.g., '2218' for Brca1)
`verbose`	bool	True	Progress flag.

Retrieve rat QTLs overlapping a genomic interval¶

dnakit.databases.rgd_get_qtls_in_region(*, chromosome, start, stop, map_key, verbose=True)

Parameter	Type	Required / default	Description and constraints
`chromosome`	string	Required	Chromosome name, e.g. '10' or 'chr10'.
`start`	integer	Required	Region start coordinate (1-based).
`stop`	integer	Required	Region stop coordinate.
`map_key`	integer	Required	Assembly map key. 360=rat rn7/GRCr8, 372=rat mRatBN7.2, 38=human GRCh38, 17=human GRCh37, 35=mouse GRCm39, 18=mouse GRCm38.
`verbose`	bool	True	Progress flag.

Retrieve rat strain details by strain symbol¶

dnakit.databases.rgd_get_strain(*, symbol, verbose=True)

Parameter	Type	Required / default	Description and constraints
`symbol`	string	Required	Exact rat strain symbol (case-insensitive), e.g. 'SHR' (spontaneously hypertensive rat), 'BN' (Brown Norway), 'SS' (Dahl salt-sensitive).
`verbose`	bool	True	Progress flag.

Retrieve rat strain disease and phenotype annotations¶

dnakit.databases.rgd_get_strain_annotations(*, symbol, category=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`symbol`	string	Required	Exact rat strain symbol (case-insensitive), e.g. 'SHR', 'BN', 'SS'.
`category`	string \| null	None	Optional annotation category filter: 'disease', 'phenotype', 'strain', 'pathway', etc. Omit to return all categories.
`verbose`	bool	True	Progress flag.

Search RGD genes by name or keyword¶

dnakit.databases.rgd_search_genes(*, query, species=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`query`	string	Required	Gene symbol or keyword (e.g., 'Brca1', 'Tp53', 'insulin')
`species`	string	None	Species to search: 'rat' (default), 'human', 'mouse'
`verbose`	bool	True	Progress flag.

Search rat strains by keyword and type¶

dnakit.databases.rgd_search_strains(*, query=None, strain_type=None, limit=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`query`	string \| null	None	Keyword to match against strain symbol, name, genetics, and description (case-insensitive substring). Example: 'hypertensive' or 'Dahl'.
`strain_type`	string \| null	None	Filter by strain type, e.g. 'inbred', 'congenic', 'transgenic', 'recombinant_inbred', 'consomic'.
`limit`	integer \| null	None	Maximum number of strains to return (default 25, max 200).
`verbose`	bool	True	Progress flag.

Retrieve yeast gene and locus overviews¶

dnakit.databases.sgd_get_gene(*, sgd_id, verbose=True)

Parameter	Type	Required / default	Description and constraints
`sgd_id`	string	Required	SGD locus identifier. Examples: 'S000000259' (GAL4), 'S000003219' (RMR1), 'S000005564' (ACT1).
`verbose`	bool	True	Progress flag.

Retrieve yeast gene GO annotations and evidence¶

dnakit.databases.sgd_get_go_annotations(*, sgd_id, verbose=True)

Parameter	Type	Required / default	Description and constraints
`sgd_id`	string	Required	SGD locus identifier. Examples: 'S000003219' (RMR1), 'S000005564' (ACT1), 'S000000259' (GAL4).
`verbose`	bool	True	Progress flag.

Retrieve yeast genetic and physical interactions¶

dnakit.databases.sgd_get_interactions(*, sgd_id, verbose=True)

Parameter	Type	Required / default	Description and constraints
`sgd_id`	string	Required	SGD locus identifier. Examples: 'S000003219' (RMR1), 'S000005564' (ACT1), 'S000000259' (GAL4).
`verbose`	bool	True	Progress flag.

Retrieve yeast mutant phenotypes and experimental conditions¶

dnakit.databases.sgd_get_phenotypes(*, sgd_id, verbose=True)

Parameter	Type	Required / default	Description and constraints
`sgd_id`	string	Required	SGD locus identifier. Examples: 'S000003219' (RMR1), 'S000000259' (GAL4), 'S000005564' (ACT1).
`verbose`	bool	True	Progress flag.

Search the yeast database across data types¶

dnakit.databases.sgd_search(*, query, category=None, limit=None, offset=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`query`	string	Required	Search query string. Examples: 'GAL4', 'cell cycle', 'sporulation'.
`category`	string	None	Filter by category. Options: 'locus', 'reference', 'biological_process', 'molecular_function', 'cellular_component', 'phenotype', 'disease', 'allele', 'complex', 'pathway', 'chemical', 'strain', 'download'.
`limit`	integer	None	Maximum results to return (default 10, max 50).
`offset`	integer	None	Pagination offset (default 0).
`verbose`	bool	True	Progress flag.

Retrieve plant morphology, growth and reproduction characteristics¶

dnakit.databases.usda_plants_get_characteristics(*, symbol, verbose=True)

Parameter	Type	Required / default	Description and constraints
`symbol`	string	Required	USDA PLANTS symbol, e.g. 'ABBA', 'ACRU'.
`verbose`	bool	True	Progress flag.

Retrieve plant names, taxonomy and growth habits¶

dnakit.databases.usda_plants_get_profile(*, symbol, verbose=True)

Parameter	Type	Required / default	Description and constraints
`symbol`	string	Required	USDA PLANTS symbol, e.g. 'ABBA' (balsam fir), 'ACRU' (red maple), 'QUAL' (white oak).
`verbose`	bool	True	Progress flag.

Retrieve nematode tissue and developmental expression¶

dnakit.databases.worm_base_get_expression(*, gene_id, verbose=True)

Parameter	Type	Required / default	Description and constraints
`gene_id`	string	Required	WormBase gene identifier. Examples: 'WBGene00006763' (unc-26), 'WBGene00000898' (daf-2).
`verbose`	bool	True	Progress flag.

Retrieve C. elegans gene details¶

dnakit.databases.worm_base_get_gene(*, gene_id, verbose=True)

Parameter	Type	Required / default	Description and constraints
`gene_id`	string	Required	WormBase gene identifier (WBGene format). Examples: 'WBGene00006763' (unc-26), 'WBGene00006789' (unc-52), 'WBGene00000898' (daf-2).
`verbose`	bool	True	Progress flag.

Retrieve experimentally observed nematode gene phenotypes¶

dnakit.databases.worm_base_get_phenotypes(*, gene_id, verbose=True)

Parameter	Type	Required / default	Description and constraints
`gene_id`	string	Required	WormBase gene identifier. Examples: 'WBGene00006763' (unc-26), 'WBGene00000898' (daf-2).
`verbose`	bool	True	Progress flag.

Retrieve Xenopus gene details and cross-references¶

dnakit.databases.xenbase_get_gene(*, gene_id, verbose=True)

Parameter	Type	Required / default	Description and constraints
`gene_id`	string	Required	Xenbase gene ID. Can be with or without 'Xenbase:' prefix. Examples: 'XB-GENE-484286' (tp53, X. tropicalis), 'XB-GENE-6252168' (tp53.L, X. laevis), 'XB-GENE-487192' (pax6, X. tropicalis).
`verbose`	bool	True	Progress flag.

Search genes in Xenopus tropicalis and Xenopus laevis¶

dnakit.databases.xenbase_search_genes(*, query, species=None, limit=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`query`	string	Required	Gene symbol or name to search. Examples: 'tp53', 'pax6', 'sox2', 'bmp4', 'wnt3a', 'fgf8'.
`species`	string	None	Optional species filter: 'tropicalis' for X. tropicalis, 'laevis' for X. laevis. Leave empty for both species.
`limit`	integer	None	Maximum number of results to return. Default: 10.
`verbose`	bool	True	Progress flag.

Retrieve zebrafish gene details¶

dnakit.databases.zfin_get_gene(*, gene_id, verbose=True)

Parameter	Type	Required / default	Description and constraints
`gene_id`	string	Required	ZFIN gene ID with 'ZFIN:' prefix. Examples: 'ZFIN:ZDB-GENE-990415-8' (pax2a), 'ZFIN:ZDB-GENE-980526-166' (shha/sonic hedgehog a), 'ZFIN:ZDB-GENE-990415-72' (tp53/tumor protein p53), 'ZFIN:ZDB-GENE-030131-7740' (bmp4/bone morphogenetic protein 4).
`verbose`	bool	True	Progress flag.

Retrieve zebrafish developmental and anatomical expression¶

dnakit.databases.zfin_get_gene_expression(*, gene_id, limit=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`gene_id`	string	Required	ZFIN gene ID, with or without the 'ZFIN:' prefix. Examples: 'ZFIN:ZDB-GENE-990415-8' (pax2a), 'ZFIN:ZDB-GENE-980526-166' (shha), 'ZFIN:ZDB-GENE-990415-72' (tp53).
`limit`	integer	None	Max annotations to return (default 50, max 100).
`verbose`	bool	True	Progress flag.

Retrieve zebrafish gene mutant phenotypes¶

dnakit.databases.zfin_get_gene_phenotypes(*, gene_id, limit=None, page=None, verbose=True)

Parameter	Type	Required / default	Description and constraints
`gene_id`	string	Required	ZFIN gene ID with 'ZFIN:' prefix. Examples: 'ZFIN:ZDB-GENE-990415-8' (pax2a), 'ZFIN:ZDB-GENE-990415-72' (tp53), 'ZFIN:ZDB-GENE-980526-166' (shha).
`limit`	integer	None	Maximum number of phenotypes to return (1-100). Default: 20.
`page`	integer	None	Page number for pagination. Default: 1.
`verbose`	bool	True	Progress flag.