[Traminer-users] seqrep and distance matrix

[Laurent Lesnard]

Hi Alexis

Thanks a lot for you quick reply. I'm going to look into that.

Best

Laurent

Le 10 juin 2010 à 17:14, Alexis Gabadinho a écrit :

> Hi Laurent,
> 
> Here is the answer to your first question. "seqrep" works fine with "half" matrices produced with the full.matrix=FALSE option. However, the plot function, "seqrplot", does not work. This is fixed (thanks to your mail). The feature will be available as of tomorrow in the development version of TraMiner which you can install by following these instructions:
> 
> http://mephisto.unige.ch/traminer/install.shtml#devel
> 
> Nevertheless, if you don't want grouped plots you can plot the representative sequences with the current (1.6) version, by using the plot() method:
> 
> mvad.om <- seqdist(mvad.seq, method="OM", sm="TRATE", full.matrix=FALSE)
> mvad.rep <- seqrep(mvad.seq, dist.matrix=mvad.om)
> plot(mvad.rep)
> 
> Notice also that there is a minor bug in the seqrplot function concerning the displayed coverage statistics if you use another neighborhood diameter than the default 0.10. This is fixed in the development version as well.
> 
> Best,
> Alexis.
> 
> 
> Laurent Lesnard a écrit :
>> Dear TraMineR makers and users
>> 
>> Is it correct that seqrep does not accept distance matrix produced by seqdist with the option full.matrix=FALSE? If so, what to you suggest to circumvent this problem: rerun the OM analysis with full.matrix=TRUE?
>> 
>> Another unrelated question: my experience is that TraMineR is very fast but cluster analysis is not. Any plan to introduce mixed clustering method (partitioning then ascending cluster analysis)?
>> 
>> Thanks a lot
>> 
>> Laurent
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