[GenABEL-dev] [Genabel-commits] r1785 - pkg/ProbABEL/doc

[L.C. Karssen]

Hi Maarten,

Thanks! That is indeed important information!


Lennart.

On 05-08-14 00:14, noreply at r-forge.r-project.org wrote:
> Author: maartenk
> Date: 2014-08-05 00:14:56 +0200 (Tue, 05 Aug 2014)
> New Revision: 1785
> 
> Modified:
>    pkg/ProbABEL/doc/ChangeLog
> Log:
> addded speedups I made to changelog(benchmarked 0.4.3 and 0.50 5 times alternating on a Ivy Bridge CPU,files are stored on a ramdisk, timings are from build it timers and overall timing from GNU time,using EIGEN 3.2.0 )
> 
> Modified: pkg/ProbABEL/doc/ChangeLog
> ===================================================================
> --- pkg/ProbABEL/doc/ChangeLog	2014-07-30 21:45:28 UTC (rev 1784)
> +++ pkg/ProbABEL/doc/ChangeLog	2014-08-04 22:14:56 UTC (rev 1785)
> @@ -3,6 +3,14 @@
>    Eigen has been removed.
>  * Not-a-number values in the output are now printed as "NaN" instead of
>    "nan".
> +* Linear regression mmscore option is 2 times faster
> +* Speedup of Linear regression:(measured with multiple runs with 2 covariates,
> +  33815 SNP and 3485 people(using all) compares to v.0.4.3)
> +** Reading mldose/mlprob files 14 times faster 
> +** Calculation of regression is more than 3.5 faster
> +** Overall runtime using above settings is 5
> +* Handles multiple variants of NaN (NA,Na,Nan,na,nan) correct while reading of
> +  mldose/mlprob files
>  
>  
>  ***** v.0.4.3 (2014.04.01)
> 
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-- 
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L.C. Karssen
Utrecht
The Netherlands

lennart at karssen.org
http://blog.karssen.org
GPG key ID: A88F554A
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