[GenABEL-dev] Precision and scientific notation in ProbABEL

[L.C. Karssen]

Thanks for the input Nicola, I've set the output to 6 significant
digits, although it seems that the cout function (used for printing)
sometimes "eats" a trailing zero.


Best,

Lennart.


On 30-07-13 10:33, Nicola Pirastu wrote:
> 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
>>
>> Stuur mij aub geen Word of Powerpoint bestanden!
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-- 
-----------------------------------------------------------------
L.C. Karssen
Utrecht
The Netherlands

lennart at karssen.org
http://blog.karssen.org

Stuur mij aub geen Word of Powerpoint bestanden!
Zie http://www.gnu.org/philosophy/no-word-attachments.nl.html
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