Package: geneHummus
Title: A Pipeline to Define Gene Families in Legumes and Beyond
Version: 1.0.11
Authors@R: c(
  person("Jose V.", "Die", email = "jose.die@uco.es", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-7506-8590")), 
  person("Moamen M.", "Elmassry", email = "moamen.elmassry@ttu.edu", role = c("ctb")),
  person("Kimberly H.", "LeBlanc", email = "kimberly.leblanc@nih.gov", role = c("ctb")),
  person("Olaitan I.", "Awe", email = "laitanawe@gmail.com", role = c("ctb")),
  person("Allissa","Dillman", email = "Allissa.Dillman@nih.gov", role = c("ctb")), 
  person("Ben", "Busby", email = "Ben.Busby@nih.gov", role = c("aut")))
Description: 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.
Depends: R (>= 3.4.0)
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
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
URL: https://github.com/NCBI-Hackathons/GeneHummus
BugReports: https://github.com/NCBI-Hackathons/GeneHummus/issues
RoxygenNote: 6.1.1
Config/pak/sysreqs: libicu-dev libxml2-dev libssl-dev
Repository: https://ncbi-hackathons.r-universe.dev
Date/Publication: 2020-09-02 21:10:25 UTC
RemoteUrl: https://github.com/ncbi-hackathons/genehummus
RemoteRef: HEAD
RemoteSha: 1fb36181760e0c1b91e65dd3cbd05af27010d8c4
NeedsCompilation: no
Packaged: 2026-06-22 08:10:01 UTC; root
Author: Jose V. Die [aut, cre] (ORCID: <https://orcid.org/0000-0002-7506-8590>),
  Moamen M. Elmassry [ctb],
  Kimberly H. LeBlanc [ctb],
  Olaitan I. Awe [ctb],
  Allissa Dillman [ctb],
  Ben Busby [aut]
Maintainer: Jose V. Die <jose.die@uco.es>