DNAMA
From HP-SEE Wiki
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== Technical Features and HP-SEE Implementation == | == Technical Features and HP-SEE Implementation == | ||
| - | * Primary programming language: '' | + | * Primary programming language: ''C'' |
| - | * Parallel programming paradigm: '' | + | * Parallel programming paradigm: ''MPI, OpenMPI'' |
| - | * Main parallel code: '' | + | * Main parallel code: ''MPI, OpenMPI'' |
| - | * Pre/post processing code: '' | + | * Pre/post processing code: ''C'' |
| - | * Application tools and libraries: '' | + | * Application tools and libraries: ''RAxML'' |
| - | * Number of cores required: '' | + | * Number of cores required: ''up to 1024'' |
| - | * Minimum RAM/core required: '' | + | * Minimum RAM/core required: ''1 GB'' |
| - | * Storage space during a single run: '' | + | * Storage space during a single run: ''256 MB'' |
| - | * Long-term data storage: '' | + | * Long-term data storage: ''1 GB'' |
== Usage Example == | == Usage Example == | ||
Revision as of 09:53, 7 July 2011
Contents |
General Information
- Application's name: DNA Multicore Analysis
- Virtual Research Community: Life Sciences
- Scientific contact: Danilo Mrdak, danilomrdak@gmail.com
- Technical contact: Luka Filipovic, lukaf@ac.me
- Developers: Center of Informatin System - University of Montenegro, School of Computer & Communication Sciences Laboratory for Computational Biology and Bioinformatics,
- Web site: -
Short Description
Using of Network Cluster Web with potential of super-computer performances for DNA sequences analyzing will give us unlimited potential for DNA research. This will give us unlimited potential in term of analyzed sequence number and time consumption for analysis to be carried out. As many of DNA comparing and analyzing software use Monte Carlo and Markov chain algorithms that are time consuming regarding to sequence numbers, super-computer resource will faster our job and make the robust and overall analysis possible.Using of all published sequences for one group (e.g. for all salmonid species: salmons, trout, grayling, river huchon) from the same DNA region (mitochondrial D-loop DNA, Cytochrom b gene…) will give us more detailed insight in their relationships and phylogeny relationships.
Problems Solved
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Scientific and Social Impact
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Collaborations and Beneficiaries
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Technical Features and HP-SEE Implementation
- Primary programming language: C
- Parallel programming paradigm: MPI, OpenMPI
- Main parallel code: MPI, OpenMPI
- Pre/post processing code: C
- Application tools and libraries: RAxML
- Number of cores required: up to 1024
- Minimum RAM/core required: 1 GB
- Storage space during a single run: 256 MB
- Long-term data storage: 1 GB
Usage Example
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Publications
- ...
- ...
