PanVC specifications

Information


Unique identifier OMICS_29603
Name PanVC
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Shell (Bash)
Computer skills Advanced
Stability Stable
Source code URL https://gitlab.com/dvalenzu/PanVC
Maintained Yes

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Versioning


No version available

Maintainer


  • person_outline Veli Makinen

Publication for PanVC

PanVC citation

library_books

seq seq pan: building a computational pan genome data structure on whole genome alignment

2018
BMC Genomics
PMCID: 5769345
PMID: 29334898
DOI: 10.1186/s12864-017-4401-3

[…] l tools. While four of the analyzed tools - JST [], MHC-PRG [], PanCake [], and vg [] - provide methods for adding or removing genomes from the pan-genome data structure, only GenomeRing [], JST [], panVC [] and vg [] offer the ability to annotate biological features. This is often caused by the representation of the pan-genome as graphs, for which there is no standard method providing a coordina […]

PanVC institution(s)
Department of Computer Science, Helsinki Institute for Information Technology HIIT, University of Helsinki, Helsinki, Finland; Department of Medical and Clinical Genetics, Genome-Scale Biology Program, University of Helsinki, Helsinki, Finland; European Molecular Biology Laboratory, Genome Biology Unit, Heidelberg, Germany
PanVC funding source(s)
Supported by the Academy of Finland (grants 284598 and 287665).

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