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 1.2.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

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_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 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