Difference between revisions of "Novoalign"
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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}} | ||
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and the results of the analyses must published in peer-reviewed journals as | and the results of the analyses must published in peer-reviewed journals as | ||
requested by the software manufacturer [http://www.novocraft.com/wiki/tiki-view_faq.php?faqId=1#q23 in Novoalign FAQ]. | requested by the software manufacturer [http://www.novocraft.com/wiki/tiki-view_faq.php?faqId=1#q23 in Novoalign FAQ]. | ||
| + | |||
<!--Modules--> | <!--Modules--> | ||
==Required Modules== | ==Required Modules== | ||
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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== | ==System Variables== | ||
| − | * HPC_{{ | + | * 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