Call about Numerical Methods in Pharo :)

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Call about Numerical Methods in Pharo :)

stepharo
Hi guys

I met Didier Besset and we had a great hacking session and discussions
with Serge Stinckwich.
Didier would like to help Pharo and the numerical part of it. ***Big
thanks*** Didier.

We would like to do several things:

     - Work on "Hows to"
       The numerical methods in Pharo is good but the gap between us and
the math is too large :)
      so the idea is to have a series of "how to ..."
             - histomgram (simple, based on distribution)

     - Improve the SciPharo/NumPha (previously SciSmalltalk) library
     This morning we started to implement a
ComponentPrincipalDecomposition by combining two of the
     objects available in SciPharo.
         Then we started to enhance the distributions to make sure that
we can plug other distribution for having
         controlled random number.

     - Do a public call to know what is missing for you: this is this
mail :)
     Didier would like to work on concrete cases. I love that attitude
     So tell us :)

             Hernan ??
             Alex: ?? pvalue? better distribution?
             Vincent: covariance? CPA?
             Philippe: times series
             Serge R frames?
             Sami: Better random number and various distributions?

     - Organise a two day lectures with practices on concrete case in
September with a recording session.
     Either at IRD Bondy or Lille.

     - Make sure that the Numerical Method book will get on lulu :) with
a better cover and title :)


Stef


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Re: [Pharo-users] Call about Numerical Methods in Pharo :)

SergeStinckwich
On Wed, Mar 2, 2016 at 2:17 PM, stepharo <[hidden email]> wrote:

> Hi guys
>
> I met Didier Besset and we had a great hacking session and discussions with
> Serge Stinckwich.
> Didier would like to help Pharo and the numerical part of it. ***Big
> thanks*** Didier.
>
> We would like to do several things:
>
>     - Work on "Hows to"
>       The numerical methods in Pharo is good but the gap between us and the
> math is too large :)
>      so the idea is to have a series of "how to ..."
>             - histomgram (simple, based on distribution)

Yes this is important to have more exemples, because they are a lot of

>     - Improve the SciPharo/NumPha (previously SciSmalltalk) library
>
>     This morning we started to implement a ComponentPrincipalDecomposition
> by combining two of the
>     objects available in SciPharo.

:-)

>         Then we started to enhance the distributions to make sure that we
> can plug other distribution for having
>         controlled random number.

Ok, did you commit the code ?

>     - Do a public call to know what is missing for you: this is this mail :)
>     Didier would like to work on concrete cases. I love that attitude
>     So tell us :)
>
>             Hernan ??
>             Alex: ?? pvalue? better distribution?
>             Vincent: covariance? CPA?
>             Philippe: times series
>             Serge R frames?
>             Sami: Better random number and various distributions?
>
>     - Organise a two day lectures with practices on concrete case in
> September with a recording session.
>     Either at IRD Bondy or Lille.
>
>     - Make sure that the Numerical Method book will get on lulu :) with a
> better cover and title :)

Thank you Stef for pushing !
Can we move this discussion of the SciSmalltalk mailing-list ?
--
Serge Stinckwich
UCBN & UMI UMMISCO 209 (IRD/UPMC)
Every DSL ends up being Smalltalk
http://www.doesnotunderstand.org/

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Re: [Pharo-users] Call about Numerical Methods in Pharo :)

abergel
In reply to this post by stepharo
Hi !

>   - Do a public call to know what is missing for you: this is this mail :)
>    Didier would like to work on concrete cases. I love that attitude
>    So tell us :)

This is an excellent initiative!
I personally need the following:
        - Shapiro-Wilk test to check for data normality
        - Kruskal-Wallis to analyze differences in median values between samples
        - Bonferroni-Dunn to support multiple comparison and controlling the group error rate
        - Mann-Whitney U test is a nonparametric statistical test that operates over two samples of the same size.

Cheers,
Alexandre

--
_,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:
Alexandre Bergel  http://www.bergel.eu
^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;.




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Re: [Pharo-users] Call about Numerical Methods in Pharo :)

hernanmd
In reply to this post by stepharo
Hi Stef,

For bioinformatics research it would be **really** nice to have:

- Tree creation algorithms: UPGMA, WPGMA.
- MCMC methods: Metropolis-adjusted Langevin algorithm (MALA and SMMALA), Metropolis-coupled MCMC (MC3) would enable Bayesian inferences and to work with evolution of genes. I cannot tell how important is to have such algorithms implemented in Smalltalk.
- Mahalanobis distance for analyzing bacterial plasmids.
- Random Forest is used a lot for gene expression, protein-protein interaction predictions, genome-wide association studies, etc . For the argument "let's use FFI for it" please remember many of these methods are extended, like enriched random forest, for research with specialized data.

There are implementations of naive Bayes classifier in NaturalSmalltalk (which could be adapted to SciPharo)
http://smalltalkhub.com/#!/~hernan/NaturalSmalltalk

As a side note I found an interesting history report of SciPy.
From the slide 9 onwards:

http://sssslide.com/www.slideshare.net/shoheihido/sci-pyhistory

Presentation shows SciPy history (credited contributors with pictures, very nice!).
As you can se they even have a Foundation NumFOCUS for raising money.

Hernán

2016-03-02 10:17 GMT-03:00 stepharo <[hidden email]>:
Hi guys

I met Didier Besset and we had a great hacking session and discussions with Serge Stinckwich.
Didier would like to help Pharo and the numerical part of it. ***Big thanks*** Didier.

We would like to do several things:

    - Work on "Hows to"
      The numerical methods in Pharo is good but the gap between us and the math is too large :)
     so the idea is to have a series of "how to ..."
            - histomgram (simple, based on distribution)

    - Improve the SciPharo/NumPha (previously SciSmalltalk) library
    This morning we started to implement a ComponentPrincipalDecomposition by combining two of the
    objects available in SciPharo.
        Then we started to enhance the distributions to make sure that we can plug other distribution for having
        controlled random number.

    - Do a public call to know what is missing for you: this is this mail :)
    Didier would like to work on concrete cases. I love that attitude
    So tell us :)

            Hernan ??
            Alex: ?? pvalue? better distribution?
            Vincent: covariance? CPA?
            Philippe: times series
            Serge R frames?
            Sami: Better random number and various distributions?

    - Organise a two day lectures with practices on concrete case in September with a recording session.
    Either at IRD Bondy or Lille.

    - Make sure that the Numerical Method book will get on lulu :) with a better cover and title :)


Stef



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Re: [Pharo-users] Call about Numerical Methods in Pharo :)

SergeStinckwich
In reply to this post by abergel
On Wed, Mar 2, 2016 at 11:39 PM, Alexandre Bergel
<[hidden email]> wrote:

> Hi !
>
>>   - Do a public call to know what is missing for you: this is this mail :)
>>    Didier would like to work on concrete cases. I love that attitude
>>    So tell us :)
>
> This is an excellent initiative!
> I personally need the following:
>         - Shapiro-Wilk test to check for data normality
>         - Kruskal-Wallis to analyze differences in median values between samples
>         - Bonferroni-Dunn to support multiple comparison and controlling the group error rate
>         - Mann-Whitney U test is a nonparametric statistical test that operates over two samples of the same size.

Great list ! At the moment, there is only Kolmogorov-Smirnov test implemented.
Can you create issues in the SciSmalltalk issue tracker in order to
keep track of your needs ?
The issue tracker is here:
https://github.com/SergeStinckwich/SciSmalltalk/issues

You can also join the SciSmalltalk mailing-list:
https://groups.google.com/forum/#!forum/scismalltalk
Thank you Alex.
--
Serge Stinckwich
UCBN & UMI UMMISCO 209 (IRD/UPMC)
Every DSL ends up being Smalltalk
http://www.doesnotunderstand.org/

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Re: [Pharo-users] Call about Numerical Methods in Pharo :)

SergeStinckwich
In reply to this post by hernanmd
On Thu, Mar 3, 2016 at 6:25 AM, Hernán Morales Durand
<[hidden email]> wrote:

> Hi Stef,
>
> For bioinformatics research it would be **really** nice to have:
>
> - Tree creation algorithms: UPGMA, WPGMA.
> - MCMC methods: Metropolis-adjusted Langevin algorithm (MALA and SMMALA),
> Metropolis-coupled MCMC (MC3) would enable Bayesian inferences and to work
> with evolution of genes. I cannot tell how important is to have such
> algorithms implemented in Smalltalk.
> - Mahalanobis distance for analyzing bacterial plasmids.
> - Random Forest is used a lot for gene expression, protein-protein
> interaction predictions, genome-wide association studies, etc . For the
> argument "let's use FFI for it" please remember many of these methods are
> extended, like enriched random forest, for research with specialized data.

Can you add enhancement issues in the SciSmalltalk issue tracker :
https://github.com/SergeStinckwich/SciSmalltalk/issues
in order to keep them in mind ?

We are trying to create a pure Smalltalk library, so we try to avoid
FFI as much as possible :-)

> There are implementations of naive Bayes classifier in NaturalSmalltalk
> (which could be adapted to SciPharo)
> http://smalltalkhub.com/#!/~hernan/NaturalSmalltalk

Great, if we can move them to SciSmalltalk.

> As a side note I found an interesting history report of SciPy.
> From the slide 9 onwards:
>
> http://sssslide.com/www.slideshare.net/shoheihido/sci-pyhistory
>
> Presentation shows SciPy history (credited contributors with pictures, very
> nice!).
> As you can se they even have a Foundation NumFOCUS for raising money.

For sure, money always help ;-)
The only problem at the moment is that the Pharo community is much
smaller at the moment than the Python one.

Thank you for your help.
--
Serge Stinckwich
UCBN & UMI UMMISCO 209 (IRD/UPMC)
Every DSL ends up being Smalltalk
http://www.doesnotunderstand.org/

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Re: [Pharo-users] Call about Numerical Methods in Pharo :)

Blondeau Vincent
In reply to this post by stepharo
Hi,

That's a very good idea.
For now, I use a Pharo-R binding to make the statistics, but it is better if it is directly in the image.

For my part, it should be nice to have:
- Principal Component Analysis
- Time series
- Correlation with several variables (Correlation matrix) + significance tests (pearson, spearman...)
- Standard statistical tests: normality, variance, mean, distribution
- And the more important is to have nice tools to visualize the data (Box plot, histogram, scatterplots, PCA ones) with a simple API for standard things but that we can customize. The best is that we are able to draw regression lines on them. But I think that is more a Roassal part.

Thanks for the initiative,

Cheers,
Vincent

> -----Message d'origine-----
> De : Pharo-users [mailto:[hidden email]] De la part de
> stepharo
> Envoyé : mercredi 2 mars 2016 14:17
> À : Pharo Development List; Any question about pharo is welcome; Didier
> Besset; Souissi Sami
> Objet : [Pharo-users] Call about Numerical Methods in Pharo :)
>
> Hi guys
>
> I met Didier Besset and we had a great hacking session and discussions with
> Serge Stinckwich.
> Didier would like to help Pharo and the numerical part of it. ***Big
> thanks*** Didier.
>
> We would like to do several things:
>
>      - Work on "Hows to"
>        The numerical methods in Pharo is good but the gap between us and the
> math is too large :)
>       so the idea is to have a series of "how to ..."
>              - histomgram (simple, based on distribution)
>
>      - Improve the SciPharo/NumPha (previously SciSmalltalk) library
>      This morning we started to implement a
> ComponentPrincipalDecomposition by combining two of the
>      objects available in SciPharo.
>          Then we started to enhance the distributions to make sure that we can
> plug other distribution for having
>          controlled random number.
>
>      - Do a public call to know what is missing for you: this is this mail :)
>      Didier would like to work on concrete cases. I love that attitude
>      So tell us :)
>
>              Hernan ??
>              Alex: ?? pvalue? better distribution?
>              Vincent: covariance? CPA?
>              Philippe: times series
>              Serge R frames?
>              Sami: Better random number and various distributions?
>
>      - Organise a two day lectures with practices on concrete case in September
> with a recording session.
>      Either at IRD Bondy or Lille.
>
>      - Make sure that the Numerical Method book will get on lulu :) with a
> better cover and title :)
>
>
> Stef
>


!!!*************************************************************************************
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This e-mail and the documents attached are confidential and intended solely for the addressee; it may also be privileged. If you receive this e-mail in error, please notify the sender immediately and destroy it. As its integrity cannot be secured on the Internet, the Worldline liability cannot be triggered for the message content. Although the sender endeavours to maintain a computer virus-free network, the sender does not warrant that this transmission is virus-free and will not be liable for any damages resulting from any virus transmitted.!!!"
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Re: [Pharo-users] Call about Numerical Methods in Pharo :)

SergeStinckwich
On Thu, Mar 3, 2016 at 10:43 AM, Blondeau Vincent
<[hidden email]> wrote:
> Hi,
>
> That's a very good idea.
> For now, I use a Pharo-R binding to make the statistics, but it is better if it is directly in the image.
>
> For my part, it should be nice to have:
> - Principal Component Analysis
> - Time series

I already a very simple time series class. What kind of operations you
want to do on time series ?

> - Correlation with several variables (Correlation matrix) + significance tests (pearson, spearman...)
> - Standard statistical tests: normality, variance, mean, distribution
> - And the more important is to have nice tools to visualize the data (Box plot, histogram, scatterplots, PCA ones) with a simple API for standard things but that we can customize. The best is that we are able to draw regression lines on them. But I think that is more a Roassal part.

You have to ask Alex to the viz :-)

Please join the SciSmalltalk ml in order to express your needs ;-)
--
Serge Stinckwich
UCBN & UMI UMMISCO 209 (IRD/UPMC)
Every DSL ends up being Smalltalk
http://www.doesnotunderstand.org/

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Re: [Pharo-users] Call about Numerical Methods in Pharo :)

abergel
In reply to this post by SergeStinckwich
> Great list ! At the moment, there is only Kolmogorov-Smirnov test implemented.

I am not sure when this tests has to be applied.

> Can you create issues in the SciSmalltalk issue tracker in order to
> keep track of your needs ?
> The issue tracker is here:
> https://github.com/SergeStinckwich/SciSmalltalk/issues

Done!

> You can also join the SciSmalltalk mailing-list:
> https://groups.google.com/forum/#!forum/scismalltalk

Done!

Alexandre

--
_,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:
Alexandre Bergel  http://www.bergel.eu
^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;.




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Re: Call about Numerical Methods in Pharo :)

stepharo
In reply to this post by stepharo
People having problems to be solved using numqi ou abacus
can you register to the mailing list and that we can continue working there?
And collecting your needs?

Stef

Le 2/3/16 14:17, stepharo a écrit :

> Hi guys
>
> I met Didier Besset and we had a great hacking session and discussions
> with Serge Stinckwich.
> Didier would like to help Pharo and the numerical part of it. ***Big
> thanks*** Didier.
>
> We would like to do several things:
>
>     - Work on "Hows to"
>       The numerical methods in Pharo is good but the gap between us
> and the math is too large :)
>      so the idea is to have a series of "how to ..."
>             - histomgram (simple, based on distribution)
>
>     - Improve the SciPharo/NumPha (previously SciSmalltalk) library
>     This morning we started to implement a
> ComponentPrincipalDecomposition by combining two of the
>     objects available in SciPharo.
>         Then we started to enhance the distributions to make sure that
> we can plug other distribution for having
>         controlled random number.
>
>     - Do a public call to know what is missing for you: this is this
> mail :)
>     Didier would like to work on concrete cases. I love that attitude
>     So tell us :)
>
>             Hernan ??
>             Alex: ?? pvalue? better distribution?
>             Vincent: covariance? CPA?
>             Philippe: times series
>             Serge R frames?
>             Sami: Better random number and various distributions?
>
>     - Organise a two day lectures with practices on concrete case in
> September with a recording session.
>     Either at IRD Bondy or Lille.
>
>     - Make sure that the Numerical Method book will get on lulu :)
> with a better cover and title :)
>
>
> Stef
>


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Re: [Pharo-users] Call about Numerical Methods in Pharo :)

abergel
In reply to this post by Blondeau Vincent
Vincent, can you tell a bit more what this binding is about?
how can I try?

Alexandre
-- 
_,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:
Alexandre Bergel  http://www.bergel.eu
^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;.



On Mar 3, 2016, at 6:43 AM, Blondeau Vincent <[hidden email]> wrote:

Hi,

That's a very good idea.
For now, I use a Pharo-R binding to make the statistics, but it is better if it is directly in the image.

For my part, it should be nice to have:
- Principal Component Analysis
- Time series
- Correlation with several variables (Correlation matrix) + significance tests (pearson, spearman...)
- Standard statistical tests: normality, variance, mean, distribution
- And the more important is to have nice tools to visualize the data (Box plot, histogram, scatterplots, PCA ones) with a simple API for standard things but that we can customize. The best is that we are able to draw regression lines on them. But I think that is more a Roassal part.

Thanks for the initiative,

Cheers,
Vincent

-----Message d'origine-----
De : Pharo-users [[hidden email]] De la part de
stepharo
Envoyé : mercredi 2 mars 2016 14:17
À : Pharo Development List; Any question about pharo is welcome; Didier
Besset; Souissi Sami
Objet : [Pharo-users] Call about Numerical Methods in Pharo :)

Hi guys

I met Didier Besset and we had a great hacking session and discussions with
Serge Stinckwich.
Didier would like to help Pharo and the numerical part of it. ***Big
thanks*** Didier.

We would like to do several things:

    - Work on "Hows to"
      The numerical methods in Pharo is good but the gap between us and the
math is too large :)
     so the idea is to have a series of "how to ..."
            - histomgram (simple, based on distribution)

    - Improve the SciPharo/NumPha (previously SciSmalltalk) library
    This morning we started to implement a
ComponentPrincipalDecomposition by combining two of the
    objects available in SciPharo.
        Then we started to enhance the distributions to make sure that we can
plug other distribution for having
        controlled random number.

    - Do a public call to know what is missing for you: this is this mail :)
    Didier would like to work on concrete cases. I love that attitude
    So tell us :)

            Hernan ??
            Alex: ?? pvalue? better distribution?
            Vincent: covariance? CPA?
            Philippe: times series
            Serge R frames?
            Sami: Better random number and various distributions?

    - Organise a two day lectures with practices on concrete case in September
with a recording session.
    Either at IRD Bondy or Lille.

    - Make sure that the Numerical Method book will get on lulu :) with a
better cover and title :)


Stef



!!!*************************************************************************************
"Ce message et les pièces jointes sont confidentiels et réservés à l'usage exclusif de ses destinataires. Il peut également être protégé par le secret professionnel. Si vous recevez ce message par erreur, merci d'en avertir immédiatement l'expéditeur et de le détruire. L'intégrité du message ne pouvant être assurée sur Internet, la responsabilité de Worldline ne pourra être recherchée quant au contenu de ce message. Bien que les meilleurs efforts soient faits pour maintenir cette transmission exempte de tout virus, l'expéditeur ne donne aucune garantie à cet égard et sa responsabilité ne saurait être recherchée pour tout dommage résultant d'un virus transmis.

This e-mail and the documents attached are confidential and intended solely for the addressee; it may also be privileged. If you receive this e-mail in error, please notify the sender immediately and destroy it. As its integrity cannot be secured on the Internet, the Worldline liability cannot be triggered for the message content. Although the sender endeavours to maintain a computer virus-free network, the sender does not warrant that this transmission is virus-free and will not be liable for any damages resulting from any virus transmitted.!!!"

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Re: [Pharo-users] Call about Numerical Methods in Pharo :)

Blondeau Vincent

Hi Alex,

 

This binding allows to execute (almost) any function provided by R via Native Calls.

 

You can find some documentation here: http://smalltalkhub.com/#!/~VincentBlondeau/RProjectConnector

I just released a new stable version,  you should be able to load it from the catalog (Pharo40 only).

However, you must install R and copy the libraries in the VM folder (see doc).

And it is working only with pre-spur images (the migration to FFI has to be done).

 

Try to run the tests (in RConnector package). Iff they are green, you succeeded to configure the binding.

 

And you can plot the famous Iris Data:

iris := 'eval' asREval: { RObject findVar: 'iris' }.

'plot'

                asREval:

                                {(iris at: 'Petal.Length').

                                (iris at: 'Petal.Width').

                                (#pch -> 21).

                                (#xlab -> 'length').

                                (#ylab -> 'Width').

                                (#bg  ->((iris at: 'Species') collect: [ :value | {'red'. 'green3'. 'blue'} at: value ])).

                                (#main -> 'Edgar Anderson''s Iris Data')}.

 

plot(iris$Petal.Length, iris$Petal.Width, pch=21, bg=c("red","green3","blue")[unclass(iris$Species)], main="Edgar Anderson's Iris Data")
is the genuine R function.

 

And inspect them:

iris inspect

 

You can use any collection of pharo and put it as argument, it should do the boxing automatically.

 

Warning: while testing new functions, don’t forget to save because evaluation of a non-existing R function throws a error that is not caught and makes Pharo crashing.

 

Cheers,

Vincent

 

 

De : Pharo-dev [mailto:[hidden email]] De la part de Alexandre Bergel
Envoyé : mardi 8 mars 2016 20:23
À : Any question about pharo is welcome
Cc : Didier Besset; Souissi Sami; Pharo Development List
Objet : Re: [Pharo-dev] [Pharo-users] Call about Numerical Methods in Pharo :)

 

Vincent, can you tell a bit more what this binding is about?

how can I try?

 

Alexandre

-- 
_,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:
Alexandre Bergel  http://www.bergel.eu
^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;.



 

On Mar 3, 2016, at 6:43 AM, Blondeau Vincent <[hidden email]> wrote:

 

Hi,

That's a very good idea.
For now, I use a Pharo-R binding to make the statistics, but it is better if it is directly in the image.

For my part, it should be nice to have:
- Principal Component Analysis
- Time series
- Correlation with several variables (Correlation matrix) + significance tests (pearson, spearman...)
- Standard statistical tests: normality, variance, mean, distribution
- And the more important is to have nice tools to visualize the data (Box plot, histogram, scatterplots, PCA ones) with a simple API for standard things but that we can customize. The best is that we are able to draw regression lines on them. But I think that is more a Roassal part.

Thanks for the initiative,

Cheers,
Vincent


-----Message d'origine-----
De : Pharo-users [[hidden email]] De la part de
stepharo
Envoyé : mercredi 2 mars 2016 14:17
À : Pharo Development List; Any question about pharo is welcome; Didier
Besset; Souissi Sami
Objet : [Pharo-users] Call about Numerical Methods in Pharo :)

Hi guys

I met Didier Besset and we had a great hacking session and discussions with
Serge Stinckwich.
Didier would like to help Pharo and the numerical part of it. ***Big
thanks*** Didier.

We would like to do several things:

    - Work on "Hows to"
      The numerical methods in Pharo is good but the gap between us and the
math is too large :)
     so the idea is to have a series of "how to ..."
            - histomgram (simple, based on distribution)

    - Improve the SciPharo/NumPha (previously SciSmalltalk) library
    This morning we started to implement a
ComponentPrincipalDecomposition by combining two of the
    objects available in SciPharo.
        Then we started to enhance the distributions to make sure that we can
plug other distribution for having
        controlled random number.

    - Do a public call to know what is missing for you: this is this mail :)
    Didier would like to work on concrete cases. I love that attitude
    So tell us :)

            Hernan ??
            Alex: ?? pvalue? better distribution?
            Vincent: covariance? CPA?
            Philippe: times series
            Serge R frames?
            Sami: Better random number and various distributions?

    - Organise a two day lectures with practices on concrete case in September
with a recording session.
    Either at IRD Bondy or Lille.

    - Make sure that the Numerical Method book will get on lulu :) with a
better cover and title :)


Stef



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Re: [Pharo-users] Call about Numerical Methods in Pharo :)

Blondeau Vincent
In reply to this post by SergeStinckwich


> -----Message d'origine-----
> De : Pharo-dev [mailto:[hidden email]] De la part de
> Serge Stinckwich
> Envoyé : jeudi 3 mars 2016 11:04
> À : Any question about pharo is welcome
> Cc : Didier Besset; Souissi Sami; Pharo Development List
> Objet : Re: [Pharo-dev] [Pharo-users] Call about Numerical Methods in Pharo
> :)
>
> On Thu, Mar 3, 2016 at 10:43 AM, Blondeau Vincent
> <[hidden email]> wrote:
> > Hi,
> >
> > That's a very good idea.
> > For now, I use a Pharo-R binding to make the statistics, but it is better if it is
> directly in the image.
> >
> > For my part, it should be nice to have:
> > - Principal Component Analysis
> > - Time series
>
> I already a very simple time series class. What kind of operations you want to
> do on time series ?

For now, I am not using time series.
But one year ago, I was using Holt Winters and Seasonal Decomposition (HoltWinters and stl functions under R).
And it is possible that I reuse them in a close future.

>
> > - Correlation with several variables (Correlation matrix) +
> > significance tests (pearson, spearman...)
> > - Standard statistical tests: normality, variance, mean, distribution
> > - And the more important is to have nice tools to visualize the data (Box
> plot, histogram, scatterplots, PCA ones) with a simple API for standard things
> but that we can customize. The best is that we are able to draw regression
> lines on them. But I think that is more a Roassal part.
>
> You have to ask Alex to the viz :-)

;)
>
> Please join the SciSmalltalk ml in order to express your needs ;-)
> --
> Serge Stinckwich
> UCBN & UMI UMMISCO 209 (IRD/UPMC)
> Every DSL ends up being Smalltalk
> http://www.doesnotunderstand.org/


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Re: [Pharo-users] Call about Numerical Methods in Pharo :)

SergeStinckwich
On Wed, Mar 9, 2016 at 7:33 PM, Blondeau Vincent
<[hidden email]> wrote:

>
>
>> -----Message d'origine-----
>> De : Pharo-dev [mailto:[hidden email]] De la part de
>> Serge Stinckwich
>> Envoyé : jeudi 3 mars 2016 11:04
>> À : Any question about pharo is welcome
>> Cc : Didier Besset; Souissi Sami; Pharo Development List
>> Objet : Re: [Pharo-dev] [Pharo-users] Call about Numerical Methods in Pharo
>> :)
>>
>> On Thu, Mar 3, 2016 at 10:43 AM, Blondeau Vincent
>> <[hidden email]> wrote:
>> > Hi,
>> >
>> > That's a very good idea.
>> > For now, I use a Pharo-R binding to make the statistics, but it is better if it is
>> directly in the image.
>> >
>> > For my part, it should be nice to have:
>> > - Principal Component Analysis
>> > - Time series
>>
>> I already a very simple time series class. What kind of operations you want to
>> do on time series ?
>
> For now, I am not using time series.
> But one year ago, I was using Holt Winters and Seasonal Decomposition (HoltWinters and stl functions under R).
> And it is possible that I reuse them in a close future.

I have no idea what is it :-) Can you add some issues regarding your
needs in the SciSmalltalk issue tracker here:
https://github.com/SergeStinckwich/SciSmalltalk/issues

Alex already add some issues as enhancement.

--
Serge Stinckwich
UCBN & UMI UMMISCO 209 (IRD/UPMC)
Every DSL ends up being Smalltalk
http://www.doesnotunderstand.org/