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Ensembl Tools

We provide a number of ready-made tools for processing both our data (Biomart and the Virtual machine) and yours. For the latter:

  • The VEP processes jobs via a ticketing system and can handle medium to large files (up to 50Mb).
  • For other jobs, only small datasets of up to 5Mb can be uploaded and processed online. We aim to extend the ticketing system used for VEP to these tools.
  • For larger datasets we provide an API script that can be downloaded (you will also need to install our Perl API to use these).
NameDescriptionOnline toolDownload codeDocumentation
Variant Effect Predictor
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Analyse your own variants and predict the functional consequences of known and unknown variants via our Variant Effect Predictor (VEP) tool.ToolDownloadDocumentation
BLAST/BLATSearch our genomes for your DNA or protein sequence.ToolDocumentation
BioMartUse this data-mining tool to export custom datasets from Ensembl.ToolDownloadDocumentation
Assembly converterMap (liftover) your data's coordinates to the current assembly.ToolDownload
ID History converterConvert a set of Ensembl IDs from a previous release into their current equivalents.ToolDownload
Ensembl Virtual MachineVirtualBox virtual Machine with Ubuntu desktop and pre-configured with the latest Ensembl API plus Variant Effect Predictor (VEP). NB: download is >1 GB-DownloadDocumentation