Difference between revisions of "BAPS"
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| − | [[Category:Software]] | + | [[Category:Software]][[Category:Biology]][[Category:Genomics]] |
{|<!--CONFIGURATION: REQUIRED--> | {|<!--CONFIGURATION: REQUIRED--> | ||
| − | |{{#vardefine:app| | + | |{{#vardefine:app|BAPS}} |
| − | |{{#vardefine:url| | + | |{{#vardefine:url|http://www.helsinki.fi/bsg/software/BAPS/}} |
<!--CONFIGURATION: OPTIONAL (|1}} means it's ON)--> | <!--CONFIGURATION: OPTIONAL (|1}} means it's ON)--> | ||
|{{#vardefine:conf|}} <!--CONFIGURATION--> | |{{#vardefine:conf|}} <!--CONFIGURATION--> | ||
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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}}}}|}} | ||
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• The genetic mixture modelling options in the | • The genetic mixture modelling options in the | ||
current BAPS software are built on a quite | current BAPS software are built on a quite | ||
different approach compared to the ordinary | different approach compared to the ordinary | ||
latent class model. | latent class model. | ||
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• The BAPS mixture model is derived using novel | • The BAPS mixture model is derived using novel | ||
Bayesian predictive classification theory, applied | Bayesian predictive classification theory, applied | ||
to the population genetics context. | to the population genetics context. | ||
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• Also, the computational approach is different | • Also, the computational approach is different | ||
and it utilizes the results on nonreversible | and it utilizes the results on nonreversible | ||
Metropolis-Hastings algorithm introduced by | Metropolis-Hastings algorithm introduced by | ||
Corander et al. (Statistics & Computing 2006). | Corander et al. (Statistics & Computing 2006). | ||
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• A variety of different prior assumptions about the | • A variety of different prior assumptions about the | ||
molecular data can be utilized in BAPS to make | molecular data can be utilized in BAPS to make | ||
inferences. | inferences. | ||
<!--Modules--> | <!--Modules--> | ||
| − | == | + | ==Environment Modules== |
| − | + | Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application. | |
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==System Variables== | ==System Variables== | ||
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory |
<!--Configuration--> | <!--Configuration--> | ||
{{#if: {{#var: conf}}|==Configuration== | {{#if: {{#var: conf}}|==Configuration== | ||
Latest revision as of 18:07, 12 August 2022
Description
• The genetic mixture modelling options in the current BAPS software are built on a quite different approach compared to the ordinary latent class model.
• The BAPS mixture model is derived using novel Bayesian predictive classification theory, applied to the population genetics context.
• Also, the computational approach is different and it utilizes the results on nonreversible Metropolis-Hastings algorithm introduced by Corander et al. (Statistics & Computing 2006).
• A variety of different prior assumptions about the molecular data can be utilized in BAPS to make inferences.
Environment Modules
Run module spider BAPS to find out what environment modules are available for this application.
System Variables
- HPC_BAPS_DIR - installation directory