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- Status: Preparatory
- Start Date: 08/10/2014
- End Date: -
- EGI.eu contact: Nuno Ferreira / firstname.lastname@example.org, Diego Scardaci / email@example.com
- External contact: Jacques.van-Helden / Jacques.van-Helden@univ-amu.fr
RSAT (Regulatory Sequence Analysis Tools) offers a series of tools dedicated to the detection of regulatory signals in non-coding sequences. The only input required is a list of genes of interest (e.g. a family of co-regulated genes). From this information, you can retrieve the upstream sequences over a desired distance, discover putative regulatory signals, search the matching positions for these signals in your original dataset or in whole genomes, and display the results graphically in the form of a feature map. Each tool is presented as a form to fill. For each form, a manual page provides detailed information about the parameters. RSAT usally processes data-sets extracted by the Ensembl databases
A VM image embedding RSAT is already available. As a first test we would like to deploy one instance of this VM on the EGI Federated Cloud.
Requirements to run the RSAT VM:
- 1 Core
- 2 GB of RAM
- 12 GB of storage
RSAT Data-sets can be huge, first tests will be done with a couple of genomes (about 4 GB). Later we will test RSAT with bigger data-sets.
RSAT web site: http://rsat.ulb.ac.be/