ampir: Predict Antimicrobial Peptides

A toolkit to predict antimicrobial peptides from protein sequences on a genome-wide scale. It incorporates a support vector machine model trained on publicly available antimicrobial peptide data using calculated physico-chemical and compositional sequence properties described in Meher et al. (2017) <doi:10.1038/srep42362>. In order to support genome-wide analyses this model is designed to accept any type of protein as input and calculation of compositional properties has been optimised for high-throughput use.

Version: 0.1.0
Depends: R (≥ 3.5.0)
Imports: Peptides, caret (≥ 6.0.0), kernlab, Rcpp
LinkingTo: Rcpp
Suggests: testthat, knitr, rmarkdown
Published: 2019-12-06
Author: Legana Fingerhut [aut, cre], Ira Cooke [aut], Jinlong Zhang [ctb] (R/read_faa.R), Nan Xiao [ctb] (R/calc_pseudo_comp.R)
Maintainer: Legana Fingerhut <legana.fingerhut at my.jcu.edu.au>
License: GPL-2
URL: https://github.com/Legana/ampir
NeedsCompilation: yes
Materials: README NEWS
CRAN checks: ampir results

Downloads:

Reference manual: ampir.pdf
Vignettes: Introduction to ampir
Package source: ampir_0.1.0.tar.gz
Windows binaries: r-prerelease: ampir_0.1.0.zip, r-release: ampir_0.1.0.zip, r-oldrel: ampir_0.1.0.zip
macOS binaries: r-prerelease: ampir_0.1.0.tgz, r-release: ampir_0.1.0.tgz, r-oldrel: ampir_0.1.0.tgz

Linking:

Please use the canonical form https://CRAN.R-project.org/package=ampir to link to this page.