Difference between revisions of "Novoalign"

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__NOTOC__
 
__NOTOC__
 
__NOEDITSECTION__
 
__NOEDITSECTION__
[[Category:Software]][[Category:Bioinformatics]]
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[[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].
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<!--Modules-->
 
<!--Modules-->
 
==Required Modules==
 
==Required Modules==
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===Serial===
 
===Serial===
 
*{{#var:app}}
 
*{{#var:app}}
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'''Note:''' Multiple software packages are made available via the novoalign module: novocraft (Novoalign), novoalignCS, novomethyl, and novosort.
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===Parallel (MPI)===
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* intel
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* openmpi
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*{{#var:app}}
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'''Note:''' Multiple software packages are made available via the novoalign module: novoalignMPI and novoalignCSMPI.
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==System Variables==
 
==System Variables==
* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory
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* 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
 
|}}
 
|}}
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=Validation=
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* Validated 4/5/2018

Latest revision as of 17:19, 19 August 2022

Description

novoalign website  

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

modules documentation

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