Cornell BRC Bioinformatics FacilityBioHPC Web Computing Resources(compute nodes status)
Next Generation Sequencing analysis tools are no longer available through this interface. To run such analysis, please use Linux machines at BioHPC Lab.
OmegaMap @ BioHPC
This page is brand-new. Please send comments about the web interface to
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.
(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
This application can't run at this time - no suitable clustersor you are not authorized to use the service.The service is available only to Cornell students, faculty, and staff.
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