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Release Notes   Installation Instructions     Download   press '[' to toggle the sidebar

  Watch channel Genomemap

Scalable Framework for Importance Sampling (infinite-sites model) in Population Genetics  Dec 10, 2013 

a Reproducible Research as Championed by Victoria Stodden

cumulative Features:

  1. Importance Sampling using Multiple Proposals
    1. run sampler by size or time
    2. compute likelihood
    3. compute MLE
    4. multi-core ready

Release Summary:

Importance Sampling (IS)

  •  Likelihood
  •  MLE
  •  Proposals-MultiThreaded
  •  Computational efficiency for IS (via SD vs HAW)

General

  •  Marker for new/improved jobs
  •  

    XML editor w/ Schema support;

  •  Model based Data (API)
  •  nb701 (platform-ide) from src

Phylogeny

  •  gene tree diagram improvements:
  •  save layout (automatically)
  •  no scrollpane; key bindings for mode; help on right-click
  •  drawing code refactored

 

 

 

 

 

 

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 Importance Sampling (IS)

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 Phylogeny

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 The brown dog jumped over the black fox. The brown dog jumped over the black fox. The brown dog jumped over the black fox.

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 General

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 The brown dog jumped over the black fox. The brown dog jumped over the black fox. The brown dog jumped over the black fox.

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Related Publications

  • Coalescent: An open-source and scalable framework for Importance Sampling in coalescent theory (under review)
  • Coalescent: An open-source and scalable framework for Exact Calculations in coalescent theory  BMC Bioinformatics (2012) 13:257
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