new VoSeq version 1.7.2

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Carlos Peña

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Nov 5, 2013, 6:55:58 AM11/5/13
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Hi all, 


Tobias has been busy adding features to VoSeq:

* Implemented degenerate coding for retrieval of datasets and restructured. Degenerate (Degen)
  coding translates possible synonymous change sites to IUPAC codes to minimize heterogeneity
  problems. It is implemented in some different flavours (at least for standard genetic code).
  Read more in Zwick etal. (2012) and Regier et al. (2010). 
  Thanks to Andreas Zwick for the translation code base.

* A merge databases tool for administrators to add data from a backup to your current database. 
  This will not overwrite anything in your old database and will only add non-conflicting information 
  to your current db.
  E.g. if a genecode or voucher already exist but is specified differently between databases, these
  and their related values (sequences/primers) will not be added.

* Included functions to store aligned morphological data as a gene/alignment (i.e. a string of numbers,
   e.g. 01100110) representing character states for a voucher. 
   The morphology data need to be aligned! 
   Multistate characters can be introduced within brackets, i.e. (),{},[] as well as with or without 
   separating comma. 
   E.g. [01] as in TNT or {0,1,2} as in MrBayes. These will be reformed when creating datasets.

* Datasets, gene/alignment tables and so on can now be made to include morphological data.

The new (and old versions) can be downloaded from here https://github.com/carlosp420/VoSeq/releases

cheers!


carlos
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