Title: A Pipeline to Define Gene Families in Legumes and Beyond
person("Moamen M.", "Elmassry", email = "moamen.elmassry@ttu.edu", role = c("aut")),
person("Kimberly H.", "LeBlanc", email = "kimberly.leblanc@nih.gov", role = c("aut")),
person("Olaitan I.", "Awe", email = "laitanawe@gmail.com", role = c("aut")),
person("Allissa","Dillman", email = "Allissa.Dillman@nih.gov", role = c("aut")),
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. (2017) <doi:10.1101/436659> for more information and examples.
Imports: rentrez, stringr, dplyr, httr, utils

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")),
Die et al. (2018) <doi:10.1101/436659> for more information and examples.

Package: geneListPie
Type: Package
Title: Profiling a gene list into GOslim or KEGG function pie
Version: 1.0
Date: 2009-10-06
Author: Xutao Deng
Maintainer: Xutao Deng <xutaodeng@gmail.com>
Description: "geneListPie" package is for mapping a gene list to
function categories defined in GOSlim or Kegg. The results can
be plotted as a pie chart to provide a quick view of the genes
distribution of the gene list among the function categories.
The gene list must contain a list of gene symbols. The package
contains a set of pre-processed gene sets obtained from Gene
Ontology and MSigDB including human, mouse, rat and yeast. To
provide a high level concise view, only GO slim and kegg are
provided. The gene sets are regulared updated. User can also
use customized gene sets. User can use the R Pie() or Pie3D()
function for plotting the pie chart. Users can also choose to
output the gene function mapping results and use external
software such as Excel(R) for ploting.
Suggests: plotrix
License: GPL-3
Packaged: 2012-07-23 09:53:29 UTC; ripley
Repository: CRAN
Date/Publication: 2012-07-23 10:35:32
Depends: R (>= 2.10)