[GenABEL-dev] Precision and scientific notation in ProbABEL

[Nicola Pirastu]

Dear Lennart,

I think that switching to scientific notation is not really necessary and could lead to a little of loss in precision unless of course you still
use 6 significant digits which will translate in just a reduction of 0 in the values.
So if for example we were to choose scientific notation with 3 significant digits, although this would not affect very much the final results we could be asked to submit more and
would not be able to comply.
So to summarize I think that if it does not have any effect on performance of ProbABEL 6 significant digits without scientific notation is fine.

Best

Nicola


Dr. Nicola Pirastu PhD
Research Fellow
Medical Sciences, Chirurgical and Health Department
University of Trieste
Medical Genetics
IRCCS Burlo Garofolo
Via dell'Istria 65/1
34137 Italy
tel. +390403785539

Il giorno 30/lug/2013, alle ore 09:32, "L.C. Karssen" <lennart at karssen.org> ha scritto:

> Dear list,
>
> I'm finalising version 0.4.0 of ProbABEL and there are two things I'd
> like your opinion on:
>
> 1) with what precision should we print the betas, standard errors and
> Chi^2 values to the output files?
>
> 2) Should we use scientific notation in the output (for betas, standard
> errors and Chi^2)?
>
> In ProbABEL v0.3.0 and earlier output was simply sent to cout without
> any explicit formatting. In practice this lead usually to 6 significant
> digits, but sometimes less. My proposal is to fix the precision at 6
> significant digits.
>
> Regarding item 2): most of the betas I see are in the range between 0
> and 10, although in case of no effect beta's can be of the order of
> 1e-2, 1e-3. All in all, I don't think switching to scientific notation
> will improve the output.
>
>
> What are your opinions?
>
>
> Thanks,
>
> Lennart.
> --
> -----------------------------------------------------------------
> L.C. Karssen
> Utrecht
> The Netherlands
>
> lennart at karssen.org
> http://blog.karssen.org
>
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