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

## Documentation for package ‘gemma.R’ version 1.0.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## 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_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