[Biojava-l] BioJava in education

[simon rayner]

i've been trying to use biojava as a segment of an advanced bioinformatics
course for masters students but these are students who are studying
virology with a specific interest in bioinformatics.  Nevertheless, some
students take to it very easily but, for me, it seems the major drawback
with biojava is it is a lot more disjointed compared to bioperl,. By this i
mean, it's not always easy to find the classes you need, or if the class is
available, it was broken during a previous release, or simply wasn't
included in the latest version. I think biojava is the way to go for
training and a course development project might be the way to get a more
cohesive documentation set.

On Fri, Nov 4, 2011 at 9:50 PM, Chris Friedline <cfriedline at vcu.edu> wrote:
>
>> Andreas,
>>
>> I had to come to it on my own.  Seems the focus at this university is on
>> Perl only and there's a serious (IMO) disconnect with our CS department.
>>  Java (or some other OO language) is only a minor requirement for
>> bioinformatics undergrads/graduate students.  However, I'd love to see this
>> change and/or be involved in the development of a course to do just that.
>>  We've been kicking around developing some intersession modules around
>> dealing with genetic data sets using Java/BioJava, but doing actual
>> research continues to stand in our way.
>>
>> On a side note, have you seen the Java Evolutionary Biology Library?
>>  Would be excellent to combine forces of these development efforts since
>> JEBL is well-vetted (e.g., FigTree, BEAST, Geneious), though that's purely
>> from a selfish user perspective.  ;-)
>>
>> Chris
>>
>> On Nov 4, 2011, at 2:21 AM, Andreas Prlic wrote:
>>
>> > Hi,
>> >
>> > Is anybody using BioJava in teaching, or has been introduced to
>> > BioJava as part of a course?
>> >
>> > Andreas
>> > _______________________________________________
>> > Biojava-l mailing list  -  Biojava-l at lists.open-bio.org
>> > http://lists.open-bio.org/mailman/listinfo/biojava-l
>>
>>
>>
>> _______________________________________________
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>>
>
>
>
> --
> Simon Rayner
>
> State Key Laboratory of Virology
> Wuhan Institute of Virology
> Chinese Academy of Sciences
> Wuhan, Hubei 430071
> P.R.China
>
> +86 (27) 87199895 (office)
> +86 18627113001 (cell)
>
>


-- 
Simon Rayner

State Key Laboratory of Virology
Wuhan Institute of Virology
Chinese Academy of Sciences
Wuhan, Hubei 430071
P.R.China

+86 (27) 87199895 (office)
+86 18627113001 (cell)