hadoop-common-user mailing list archives

Site index · List index
Message view « Date » · « Thread »
Top « Date » · « Thread »
From Luca Pireddu <pire...@crs4.it>
Subject Re: Hadoop for Bioinformatics
Date Tue, 29 Mar 2011 13:49:36 GMT
On March 28, 2011 04:51:14 Franco Nazareno wrote:
> Well I just want to ask this with regards to my study. Currently I'm
> studying my PhD course in Bioinformatics, and my question is that can you
> give me a (rough) idea if it's possible to use Hadoop cluster in achieving
> a DNA sequence alignment? My basic idea for this goes something like a
> string search out of a huge data files stored in HDFS, and the application
> uses MapReduce in searching and computing. As the Hadoop paradigm impies,
> it doesn't serve well in interactive applications, and I think this kind
> of searching is a "write-once, read-many" application.

I'll add some relevant citations:

An overview of the Hadoop/MapReduce/HBase framework and its current 
applications in bioinformatics

Biodoop: Bioinformatics on Hadoop

CloudBurst: highly sensitive read mapping with MapReduce

CloudBLAST: Combining MapReduce and Virtualization on Distributed Resources 
for Bioinformatics Applications

Luca Pireddu
CRS4 - Distributed Computing Group
Loc. Pixina Manna Edificio 1
Pula 09010 (CA), Italy
Tel:  +39 0709250452

View raw message