Functional Annotation and Biological Data Retrieval with R


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Documentation for package ‘biomartr’ version 0.0.3

Help Pages

biomart Main BioMart Query Function
download_database Download a Database to Your Local Hard Drive
getAttributes Retrieve All Available Attributes for a Specific Dataset
getCDS Coding Sequence Retrieval
getDatasets Retrieve All Available Datasets for a BioMart Database
getFilters Retrieve All Available Filters for a Specific Dataset
getGenome Genome Retrieval
getGO Gene Ontology Query
getMarts Retrieve All Available BioMart Databases
getProteome Proteome Retrieval
is.genome.available Check Genome Availability
listDatabases Retrieve a List of Available Databases for Download
listGenomes List All Available Genomes
organismAttributes Retrieve Biomart Attributes for an Organism
organismBM Retrieve Biomart Marts and Datasets for an Organism
organismFilters Retrieve Biomart Filters for an Organism
read_cds Read the CDS of a given Organism
read_genome Read the genome of a given Organism
read_proteome Read the proteome of a given Organism
refseqOrganisms Retrieve All Organism Names Stored on refseq