[emboss-dev] EMBOSS Funding and New developments

George Magklaras georgios at biotek.uio.no
Tue Jun 9 08:40:17 UTC 2009

That's very good news Peter.

I would add to the list the production of documentation for the EMBOSS 
admins. In terms of improving the indexing, may node managers (including 
myself) have created scripts to automate the formatting of large 
databases. Maybe it might be an idea to include them in some sort of 
add-on section, so that people can have error-free formatted dbs with 
the click of a button or a script call.


George Magklaras BSc Hons MPhil 

Senior Computer Systems Engineer/EMBnet node manager
EMBnet Technical Management Board 
The Biotechnology Centre of Oslo,
University of Oslo

Tel: +47-22840535


Peter Rice wrote:
> Dear EMBOSS Users and Developers
> We bring you great news - EMBOSS is funded in full by the BBSRC
> "Bioinformatics and Biological Resources" Fund. We now have money for
> Alan Bleasby and 2 other positions (Jon Ison and Mahmut Uludag) from 1st
> May until the end of 2011.
> The core aims of the funding proposal were to continue support,
> maintenance and development of EMBOSS, and to provide extensive online
> training materials for users, developers and system administrators using
> text from a series of books to be published by Cambridge University Press.
> We are also explicitly targeting areas where we see EMBOSS can be
> expanded:
> * Richer data content in EMBOSS outputs leading to major improvements
>    in the integration and visualisation of results in browsers.
> * Processing many more data fields in EMBOSS inputs (taxonomy,
>    genes, GO terms, cross-references, keywords.
> * Extending and improving database access: better indexing, query
>    language support and combining searches across multiple databases,
>    support for non-sequence data resources and new data access methods
> * Scaling up the libraries and adding new applications to support the
>    data volumes generated by next-generation sequencing runs. We
>    anticipate many more users will be working with short read data
>    mapped to reference sequences over the next few years.
> * We aim to add at least 100 new applications in these 3 years.
>    Suggestions for new applications are very welcome.
> * Release 6.1.0 will appear, as usual, on 15th July.
> * Major work on new developments and new library code will start from
>    August.
> We hope to meet many of you at BOSC/ISMB/ECCB in Stockholm at the end of
> this month, We will arrange a lunchtime "Birds of a Feather" session
> at ISMB to discuss the needs of users over the next 3 years.
> regards,
> Peter Rice
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