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Version 1 Rev 490
(2014/04/02 13:27:25)

OmegaMap @ BioHPC
This page is brand-new. Please send comments about the web interface to biohpc@cornell.edu.

OmegaMap (version 0.5) is a program by Daniel Wilson for detecting natural selection and recombination in DNA or RNA sequences. It is based on a model of population genetics and molecular evolution. The signature of natural selection is detected using the dN/dS ratio (which measures the relative excess of non-synonymous to synonymous polymorphism) and the signature of recombination is detected from the patterns of linkage disequilibrium. For details, see the following page.

You will need to specify how many independent OmegaMap tasks (with the same input but different random number seeds) you want to run through a single click of "Submit" button. You will then need to upload your "ini" file (containing all program control parameters) and the input FASTA file. The tasks will be run independently. Results from each task will be placed in a separate directory and packed together into a zip archive, available for http and ftp download via a link in a notification e-mail. The number of processors the job will run on will be adjusted automatically and can be lowered by the user.

Calculations will be carried out on the BioHPC compute cluster at CBSU. You will receive e-mail notifications when the job is submitted, when it starts, and when it is finished. Output will be available via links embedded in the notification e-mails. For more information about this program and BioHPC interface in general, please visit our Frequently Asked Questions page.

       E-mail:  
(only guests need to use this field, registered users should log in) 

Job name:    (will be set based on the name of input "ini" file)

Upload your parameters file (*.ini)
(File names referenced in the "ini" file must not include paths. See here for program documentation)

Upload your FASTA input file
(this file must be declared as FASTA parameter in your "ini" file)

Number of tasks

Maximum number of processors to use 
(lowering the number of processors may allow the job to start sooner, but it will increase the time of the calculation)

Cluster: This application can't run at this time - no suitable clusters
or you are not authorized to use the service.
The service is available only to Cornell students, faculty, and staff.
 
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