OMGS – Optical Map-Based Genome Scaffolding

OMGS

:: DESCRIPTION

OMGS is a fast genome scaffolding tool which takes advantage of one or multiple Bionano optical maps to accurately generate scaffolds.

::DEVELOPER

Weihua Pan

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • Perl

:: DOWNLOAD

OMGS

:: MORE INFORMATION

Citation

Pan W, Jiang T, Lonardi S.
OMGS: Optical Map-Based Genome Scaffolding.
J Comput Biol. 2020 Apr;27(4):519-533. doi: 10.1089/cmb.2019.0310. Epub 2019 Dec 3. PMID: 31794680.

Chimericognizer – Optical Map based Chimeric Contigs Correction tool

Chimericognizer

:: DESCRIPTION

Chimericognizer is a novel and accurate chimeric contigs correction tool which can correct chimeric contigs and chimeric optical map molecules by each other.

::DEVELOPER

Weihua Pan

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • Perl

:: DOWNLOAD

Chimericognizer

:: MORE INFORMATION

Citation

Pan W, Lonardi S.
Accurate detection of chimeric contigs via Bionano optical maps.
Bioinformatics. 2019 May 15;35(10):1760-1762. doi: 10.1093/bioinformatics/bty850. PMID: 30295726.

Novo&Stitch – Genome Assembly Reconciliation tool based on Optical Map

Novo&Stitch

:: DESCRIPTION

Novo&Stitch is an assembly reconciliation tool which takes advantage of optical maps to accurately carry out assembly reconciliation.

::DEVELOPER

Weihua Pan

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • Perl

:: DOWNLOAD

Novo&Stitch

:: MORE INFORMATION

Citation

Pan W, Wanamaker SI, Ah-Fong AMV, Judelson HS, Lonardi S.
Novo&Stitch: accurate reconciliation of genome assemblies via optical maps.
Bioinformatics. 2018 Jul 1;34(13):i43-i51. doi: 10.1093/bioinformatics/bty255. PMID: 29949964; PMCID: PMC6022655.