geneHummus: A Pipeline to Define Gene Families in Legumes and Beyond
A pipeline with high specificity and sensitivity in extracting proteins from the RefSeq database (National Center for Biotechnology Information). Manual identification of gene families is highly time-consuming and laborious, requiring an iterative process of manual and computational analysis to identify members of a given family. The pipelines implements an automatic approach for the identification of gene families based on the conserved domains that specifically define that family. See Die et al. (2018) <doi:10.1101/436659> for more information and examples.
| Version: | 1.0.11 |
| Depends: | R (≥ 3.4.0) |
| Imports: | rentrez (≥ 1.2.1),stringr (≥ 1.4.0),dplyr (≥ 0.8.0.1),httr (≥ 1.4.0), utils,curl (≥ 3.3) |
| Suggests: | knitr,rmarkdown |
| Published: | 2019-04-04 |
| DOI: | 10.32614/CRAN.package.geneHummus |
| Author: | Jose V. Die [aut, cre], Moamen M. Elmassry [ctb], Kimberly H. LeBlanc [ctb], Olaitan I. Awe [ctb], Allissa Dillman [ctb], Ben Busby [aut] |
| Maintainer: | Jose V. Die <jose.die at uco.es> |
| BugReports: | https://github.com/NCBI-Hackathons/GeneHummus/issues |
| License: | MIT + fileLICENSE |
| URL: | https://github.com/NCBI-Hackathons/GeneHummus |
| NeedsCompilation: | no |
| Materials: | README |
| CRAN checks: | geneHummus results |
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