Difference between revisions of "Asaq"

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(Created page with "Category:Software {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|Asaq}} |{{#vardefine:url|https://github.com/marinagarrote/ASAQ-method}} <!--CONFIGURATION: OPTIONAL (|...")
 
 
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[[Category:Software]]
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[[Category:Software]][[Category:Alignment]][[Category:Sequencing]][[Category:Phylogenetics]]
 
{|<!--CONFIGURATION: REQUIRED-->
 
{|<!--CONFIGURATION: REQUIRED-->
 
|{{#vardefine:app|Asaq}}
 
|{{#vardefine:app|Asaq}}
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{{App_Description|app={{#var:app}}|url={{#var:url}}|name={{#var:app}}}}|}}
 
{{App_Description|app={{#var:app}}|url={{#var:url}}|name={{#var:app}}}}|}}
  
The ASAQ method has been implemented in C++ to be run in a UNIX terminal. Given an alignment of four sequences, ASAQ computes three weights, one for each possible tree topology.
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The ASAQ method has been implemented in C++ to be run in a UNIX terminal. Given an alignment of four sequences, ASAQ computes three weights, one for each possible tree topology. To run ASAQ it is necessary to have installed the C++ linear algebra library Armadillo
  
 
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==System Variables==
 
==System Variables==
 
* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
 
* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
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* HPC_{{uc:{{#var:app}}}}_BIN - executable directory
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* HPC_{{uc:{{#var:app}}}}_LIB - library directory
 
<!--Configuration-->
 
<!--Configuration-->
 
{{#if: {{#var: conf}}|==Configuration==
 
{{#if: {{#var: conf}}|==Configuration==
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*'''Q:''' **'''A:'''|}}
 
*'''Q:''' **'''A:'''|}}
 
<!--Citation-->
 
<!--Citation-->
{{#if: {{#var: citation}}|==Citation==
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{{#if: {{#var: citation}}1|==Citation==
 
If you publish research that uses {{#var:app}} you have to cite it as follows:
 
If you publish research that uses {{#var:app}} you have to cite it as follows:
  
WRITE_CITATION_HERE
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Please cite the following papers if you use Armadillo in your research and/or software.
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Citations are useful for the continued development and maintenance of the library.
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Conrad Sanderson and Ryan Curtin. [http://arma.sourceforge.net/armadillo_joss_2016.pdf Armadillo: a template-based C++ library for linear algebra]. Journal of Open Source Software, Vol. 1, pp. 26, 2016.
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Conrad Sanderson and Ryan Curtin. [http://arma.sourceforge.net/armadillo_lncs_2018.pdf A User-Friendly Hybrid Sparse Matrix Class in C++]. Lecture Notes in Computer Science (LNCS), Vol. 10931, pp. 422-430, 2018.
  
 
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Latest revision as of 15:10, 1 June 2022

Description

Asaq website  

The ASAQ method has been implemented in C++ to be run in a UNIX terminal. Given an alignment of four sequences, ASAQ computes three weights, one for each possible tree topology. To run ASAQ it is necessary to have installed the C++ linear algebra library Armadillo

Environment Modules

Run module spider Asaq to find out what environment modules are available for this application.

System Variables

  • HPC_ASAQ_DIR - installation directory
  • HPC_ASAQ_BIN - executable directory
  • HPC_ASAQ_LIB - library directory




Citation

If you publish research that uses Asaq you have to cite it as follows:

Please cite the following papers if you use Armadillo in your research and/or software. Citations are useful for the continued development and maintenance of the library.

Conrad Sanderson and Ryan Curtin. Armadillo: a template-based C++ library for linear algebra. Journal of Open Source Software, Vol. 1, pp. 26, 2016.

Conrad Sanderson and Ryan Curtin. A User-Friendly Hybrid Sparse Matrix Class in C++. Lecture Notes in Computer Science (LNCS), Vol. 10931, pp. 422-430, 2018.