Difference between revisions of "Oases"
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Oases is a de novo transcriptome assembler designed to produce transcripts | Oases is a de novo transcriptome assembler designed to produce transcripts | ||
from short read sequencing technologies, such as Illumina, SOLiD, or 454 in | from short read sequencing technologies, such as Illumina, SOLiD, or 454 in | ||
Revision as of 01:53, 10 August 2012
Description
Oases is a de novo transcriptome assembler designed to produce transcripts from short read sequencing technologies, such as Illumina, SOLiD, or 454 in the absence of any genomic assembly. It was developed by Marcel Schulz (MPI for Molecular Genomics) and Daniel Zerbino (previously at the European Bioinformatics Institute (EMBL-EBI), now at UC Santa Cruz). Template:App Location
Available versions
- 0.2.04
Running the application using modules
To use oases with the environment modules system at HPC the following commands are available:
Get module information for oases:
$module spider oases
Load the default application module:
$module load oases
The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables:
- HPC_OASES_DIR - directory where oases is located.
- HPC_OASES_BIN
- HPC_OASES_DOC