Reference

Dataset endpoints Endpoints accessing datasets (i.e. expression experiments), and their associated properties and files.
get_dataset_annotations()	Retrieve the annotations of a dataset
get_dataset_design()	Retrieve the design of a dataset
get_dataset_differential_expression_analyses()	Retrieve annotations and surface level stats for a dataset's differential analyses
get_dataset_expression_for_genes()	Retrieve the expression data matrix of a set of datasets and genes
get_dataset_object()	Compile gene expression data and metadata
get_dataset_platforms()	Retrieve the platforms of a dataset
get_dataset_processed_expression()	Retrieve processed expression data of a dataset
get_dataset_quantitation_types()	Retrieve quantitation types of a dataset
get_dataset_raw_expression()	Retrieve raw expression data of a dataset
get_dataset_samples()	Retrieve the samples of a dataset
get_datasets()	Retrieve all datasets
get_datasets_by_ids()	Retrieve datasets by their identifiers
get_differential_expression_values()	Retrieve differential expression results
Platform endpoints Endpoints accessing platforms, and their associated properties and files.
get_platform_annotations()	Retrieve Platform Annotations by Gemma
get_platform_datasets()	Retrieve all experiments using a given platform
get_platform_element_genes()	Retrieve the genes associated to a probe in a given platform
get_platforms_by_ids()	Retrieve all platforms matching a set of platform identifiers
Gene endpoints Endpoints accessing genes (non taxon-specific).
get_gene_differential_expression_values()	Retrieve the differential expression results for a given gene among datasets matching the provided query and filter
get_gene_go_terms()	Retrieve the GO terms associated to a gene
get_gene_locations()	Retrieve the physical locations of a given gene
get_gene_probes()	Retrieve the probes associated to a genes across all platforms
get_genes()	Retrieve genes matching gene identifiers
Taxon endpoints Endpoints accessing taxons.
Other functions Remaining endpoints and helper functions.
filter_properties()	Return all supported filter properties
forget_gemma_memoised()	Clear gemma.R cache
gemma_call()	Custom gemma call
gemma_kable()	Create printable tables out of gemma.R outputs
gemma_memoise()	Enable and disable memoisation of gemma.R functions
get_all_pages()	Get all pages of a paginated call
get_child_terms()	Return child terms of a term
get_result_sets()	Retrieve all result sets matching the provided criteria
get_taxa()	Get taxa
make_design()	Make simplified design frames
search_annotations()	Search for annotation tags
search_gemma()	Search everything in Gemma
set_gemma_user()	Authentication by user name
update_result()	Update result