Novoalign: Difference between revisions
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__NOTOC__ | __NOTOC__ | ||
__NOEDITSECTION__ | __NOEDITSECTION__ | ||
[[Category:Software]][[Category: | [[Category:Software]][[Category:Biology]][[Category:NGS]] | ||
{|<!--Main settings - REQUIRED--> | |||
{| | |||
<!--Main settings - REQUIRED--> | |||
|{{#vardefine:app|novoalign}} | |{{#vardefine:app|novoalign}} | ||
|{{#vardefine:url|http://www.novocraft.com/main/page.php?s=novoalign}} | |{{#vardefine:url|http://www.novocraft.com/main/page.php?s=novoalign}} | ||
|{{#vardefine:exe|}} <!--Present manual instructions for running the software --> | |{{#vardefine:exe|}} <!--Present manual instructions for running the software --> | ||
|{{#vardefine:conf|}} <!--Enable config wiki page link - {{#vardefine:conf|1}} = ON/conf|}} = OFF--> | |{{#vardefine:conf|}} <!--Enable config wiki page link - {{#vardefine:conf|1}} = ON/conf|}} = OFF--> | ||
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===Serial=== | ===Serial=== | ||
*{{#var:app}} | *{{#var:app}} | ||
'''Note:''' Multiple software packages are made available via the novoalign module: novocraft (Novoalign), novoalignCS, novomethyl, and novosort. | |||
===Parallel (MPI)=== | |||
* intel | |||
* openmpi | |||
*{{#var:app}} | |||
'''Note:''' Multiple software packages are made available via the novoalign module: novoalignMPI and novoalignCSMPI. | |||
==System Variables== | |||
* HPC_{{uc:{{#var:app}}}}_DIR - installation directory | |||
* HPC_NOVOALIGN_BIN - executable directory | * HPC_NOVOALIGN_BIN - executable directory | ||
* HPC_NOVOALIGN_DOC - documentation directory | * HPC_NOVOALIGN_DOC - documentation directory | ||
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WRITE CITATION HERE | WRITE CITATION HERE | ||
|}} | |}} | ||
=Validation= | |||
* Validated 4/5/2018 | |||
Latest revision as of 17:19, 19 August 2022
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.
Required Modules
Serial
- novoalign
Note: Multiple software packages are made available via the novoalign module: novocraft (Novoalign), novoalignCS, novomethyl, and novosort.
Parallel (MPI)
- intel
- openmpi
- novoalign
Note: Multiple software packages are made available via the novoalign module: novoalignMPI and novoalignCSMPI.
System Variables
- HPC_NOVOALIGN_DIR - installation directory
- HPC_NOVOALIGN_BIN - executable directory
- HPC_NOVOALIGN_DOC - documentation directory
Validation
- Validated 4/5/2018