This is the Linux app named HSRA whose latest release can be downloaded as HSRA-v1.1.tar.gz. It can be run online in the free hosting provider OnWorks for workstations.
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HSRA
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DESCRIPTION
HSRA is a MapReduce-based parallel tool for mapping reads from RNA sequencing (RNA-seq) experiments. RNA-seq analyses typically begin by mapping reads to a reference genome in order to determine the location from which the reads were originated, which is a very time-consuming step. This tool allows bioinformatics researchers to efficiently distribute their mapping tasks over the nodes of a cluster by combining a fast multithreaded spliced aligner (HISAT2) with Apache Hadoop, which is a distributed computing framework for scalable Big Data processing.
HSRA currently supports single-end and paired-end read alignments from FASTQ/FASTA datasets. Moreover, our tool uses the Hadoop Sequence Parser (HSP) library (link above) to efficiently read the input datasets stored on the Hadoop Distributed File System (HDFS), being able to process datasets compressed with Gzip and BZip2 codecs.
Audience
Information Technology, Healthcare Industry, Science/Research
User interface
Console/Terminal, Command-line
Programming Language
Java
Categories
This is an application that can also be fetched from https://sourceforge.net/projects/hsra/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.
