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From Jeremy Lewi <jer...@lewi.us>
Subject Re: e-Science app on Hadoop
Date Mon, 19 Aug 2013 00:40:55 GMT
Contrail is a DeNovo Assembler which uses Map Reduce and Avro.
http://en.wikipedia.org/wiki/Contrail
As part of this effort, we developed an efficient FastQ InputFormat reader
for processing FastQ files in parallel.

http://kbase.science.energy.gov/about/about/ is an effort by the DOE to
create a modular platform for bioinformatics. I think its using hadoop
under the hood for job scheduling and other functions.

Dr. Michael Schatz (http://www.cbcb.umd.edu/~mschatz/) who is one of the
developers of Contrail has a bunch of work on porting bioinformatics to
Hadoop.

J


On Fri, Aug 16, 2013 at 2:42 PM, Jay Vyas <jayunit100@gmail.com> wrote:

> there are literally hundreds.  Here is a great review article for how
> mapreduce is used in the bioinformatics algorithms space:
>
> http://www.biomedcentral.com/1471-2105/11/S12/S1
>
>
> On Fri, Aug 16, 2013 at 3:38 PM, Felipe Gutierrez <
> felipe.o.gutierrez@gmail.com> wrote:
>
>> Hello,
>>
>> Does anybody know an e-Science application to run on Hadoop?
>>
>> Thanks.
>> Felipe
>>
>> --
>> *--
>> -- Felipe Oliveira Gutierrez
>> -- Felipe.o.Gutierrez@gmail.com
>> -- https://sites.google.com/site/lipe82/Home/diaadia*
>>
>
>
>
> --
> Jay Vyas
> http://jayunit100.blogspot.com
>

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