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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 |
| 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 + file LICENSE |
| URL: |
https://github.com/NCBI-Hackathons/GeneHummus |
| NeedsCompilation: |
no |
| Materials: |
README |
| CRAN checks: |
geneHummus results |
Documentation:
Downloads:
Linking:
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https://CRAN.R-project.org/package=geneHummus
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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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