genoPlotR pipeline
genoPlotR specifications
Information
| Unique identifier | OMICS_10937 |
|---|---|
| Name | genoPlotR |
| Software type | Package/Module |
| Interface | Command line interface |
| Restrictions to use | None |
| Input data | GenoPlotR reads data stored in commonly used formats (EMBL, Genbank, BLAST and Mauve outputs) or in user-created tabular files and allows comparisons of one or several subsegments of a genome. |
| Operating system | Unix/Linux, Mac OS, Windows |
| Programming languages | R |
| License | GNU General Public License version 3.0 |
| Computer skills | Advanced |
| Version | 0.8.4 |
| Stability | Stable |
| Requirements | ade4, grid |
| Maintained | Yes |
Versioning
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Documentation
Publication for genoPlotR
2010 Bioinformatics
PMCID: 2935412
PMID: 20624783
DOI: 10.1093/bioinformatics/btq413
genoPlotR IN pipeline
2015
PMCID: 4478539
PMID: 25850427
DOI: 10.1534/g3.114.015933
[…] hits of each search were then aligned to the non-redundant ncbi database to confirm their assignment. the genomic regions containing lin genes were aligned pairwise with megablast and displayed with genoplotr (guy et al. 2010) to examine the conserved regions between the studied sequences., growth assays with four hch isomers allowed us to compare the abilities of ll01, ll02, and ll03 to degrade […]
genoPlotR institution(s)
Department of Molecular Evolution, Uppsala University, Norbyvägen, Uppsala, Sweden
genoPlotR funding source(s)
The Swedish Research Council (623-2009-743); the Swiss National Science Foundation (PBLA33-119626); the Swedish Research Council, the Göran Gustafsson Foundation and the European Union
genoPlotR reviews
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