CRAN/E | geneHummus

geneHummus

A Pipeline to Define Gene Families in Legumes and Beyond

Installation

About

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.

github.com/NCBI-Hackathons/GeneHummus
Bug report File report

Key Metrics

Version 1.0.11
R ≥ 3.4.0
Published 2019-04-04 1856 days ago
Needs compilation? no
License MIT
License File
CRAN checks geneHummus results

Downloads

Yesterday 8 0%
Last 7 days 47 -20%
Last 30 days 170 -11%
Last 90 days 476 -28%
Last 365 days 2.121 -19%

Maintainer

Maintainer

Jose V. Die

jose.die@uco.es

Authors

Jose V. Die

aut / cre

Moamen M. Elmassry

ctb

Kimberly H. LeBlanc

ctb

Olaitan I. Awe

ctb

Allissa Dillman

ctb

Ben Busby

aut

Material

README
Reference manual
Package source

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

r-oldrel

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

geneHummus archive

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