Novoalign: Difference between revisions
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Revision as of 16:32, 10 August 2012
Description
Novoalign is a highly accurate program for mapping next-generation sequencing reads to a reference database. It is an aligner for single-ended and paired-end reads from the Illumina Genome Analyser. Novoalign finds global optimum alignments using full Needleman-Wunsch algorithm with affine gap penalties.
Limited functionality and single-threaded performance are available without a paid license. Novoalign must only be used for academic/non-profit research and the results of the analyses must published in peer-reviewed journals as requested by the software manufacturer in Novoalign FAQ.
Execution Environment and Modules
To use novoalign with the environment modules system at HPC the following commands are available:
Get module information for novoalign:
$module spider novoalign
Load the default application module:
$module load novoalign
The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables:
- HPC_NOVOALIGN_DIR - directory where novoalign is located.
- HPC_NOVOALIGN_BIN - executable directory
- HPC_NOVOALIGN_DOC - documentation directory