A pipeline for the identification, within taxonomic groups, of orthologous sequence clusters from 'GenBank' <https://www.ncbi.nlm.nih.gov/genbank/> as the first step in a phylogenetic analysis. The pipeline depends on a local alignment search tool and is, therefore, not dependent on differences in gene naming conventions and naming errors.
| Version: | 1.0.0 |
| Depends: | R (≥ 3.3.0), methods |
| Imports: | igraph, rentrez, XML, ggplot2, sys, treeman, treemapify, R.utils |
| Suggests: | testthat, knitr, rmarkdown |
| Published: | 2018-07-31 |
| Author: | Hannes Hettling [aut], Rutger Vos [aut], Alexander Zizka [aut], Dom Bennett [aut, cre], Alexandre Antonelli [aut] |
| Maintainer: | Dom Bennett <dominic.john.bennett at gmail.com> |
| BugReports: | https://github.com/ropensci/phylotaR/issues |
| License: | MIT + file LICENSE |
| URL: | https://github.com/ropensci/phylotaR#readme |
| NeedsCompilation: | no |
| SystemRequirements: | BLAST+ (>=2.0) |
| Materials: | README |
| CRAN checks: | phylotaR results |
| Reference manual: | phylotaR.pdf |
| Vignettes: |
phylotaR Tutorial |
| Package source: | phylotaR_1.0.0.tar.gz |
| Windows binaries: | r-devel: phylotaR_1.0.0.zip, r-release: phylotaR_1.0.0.zip, r-oldrel: phylotaR_1.0.0.zip |
| OS X binaries: | r-release: phylotaR_1.0.0.tgz, r-oldrel: phylotaR_1.0.0.tgz |
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