BIOMART

Description

biomart website

Tables of Ensembl data can be downloaded via the highly customisable BioMart data mining tool. The BioMart Perl API allow you to go a step further with BioMart and allow you to integrate BioMart Perl Code into custom Perl scripts.

Environment Modules

Run module spider biomart to find out what environment modules are available for this application.

Environment Variables

• HPC_BIOMART_DIR - installation directory
• HPC_BIOMART_BIN - executable directory
• HPC_BIOMART_CONF - configuration directory For configuration see $HPC_BIOMART_CONF/martURLLocation.xml

Additional Usage Information

Download the default BioMart Registry and save it as an xml file to be used with the biomart API scripts.

Categories

biology, genomics