Package: geneHummus 1.0.11

Jose V. Die

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.

Authors:Jose V. Die [aut, cre], Moamen M. Elmassry [ctb], Kimberly H. LeBlanc [ctb], Olaitan I. Awe [ctb], Allissa Dillman [ctb], Ben Busby [aut]

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geneHummus/json (API)

Peer review:

Bug tracker:https://github.com/ncbi-hackathons/genehummus/issues

On CRAN:

7 exports 7 stars 1.76 score 27 dependencies 2 mentions 3 scripts 185 downloads

Last updated 4 years agofrom:1fb3618176. Checks:OK: 1 WARNING: 6. Indexed: yes.

Exports:accessions_by_sppaccessions_from_sppfilterArch_idsgetAccessionsgetArch_idsgetArch_labelsgetProteins_from_tax_ids

Dependencies:askpassclicurldplyrfansigenericsgluehttrjsonlitelifecyclemagrittrmimeopensslpillarpkgconfigR6rentrezrlangstringistringrsystibbletidyselectutf8vctrswithrXML