A wrapper for Gemma's Restful API to access curated gene expression data and differential expression analyses


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Documentation for package ‘gemma.R’ version 1.0.1

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forget_gemma_memoised Clear gemma.R cache
gemma.R gemma.R package: Access curated gene expression data and differential expression analyses
gemma_call Custom gemma call
get_datasets_by_ids Retrieve datasets by their identifiers
get_dataset_annotations Retrieve the annotations analysis of a dataset
get_dataset_design Retrieve the design of a dataset
get_dataset_differential_expression_analyses Retrieve the differential analyses of a dataset
get_dataset_expression Retrieve the expression data of a dataset
get_dataset_object Compile gene expression data and metadata
get_dataset_platforms Retrieve the platform of a dataset
get_dataset_samples Retrieve the samples of a dataset
get_differential_expression_values Retrieve differential expression results
get_genes Retrieve genes matching a gene identifier
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
get_platforms_by_ids Retrieve all platforms matching a set of platform identifiers
get_platform_annotations Retrieve Platform Annotations by Gemma
get_platform_datasets Retrieve all experiments within a given platform
get_platform_element_genes Retrieve the genes associated to a probe in a given platform
get_taxa Get taxa
get_taxon_datasets Retrieve the datasets for a given taxon
search_annotations Search for annotation tags
search_datasets Retrieve datasets associated to an annotation tags search
search_gemma Search everything in Gemma.
set_gemma_user Authentication by user name