Package: ampir
Type: Package
Title: Predict Antimicrobial Peptides
Version: 1.0.0
Date: 2020-05-11
Authors@R: c(person("Legana","Fingerhut",
                     email = "legana.fingerhut@my.jcu.edu.au",
                     role = c("aut", "cre"),
                     comment = c(ORCID = "0000-0002-2482-5336")),
             person("Ira","Cooke",
                     email = "ira.cooke@jcu.edu.au",
                     role = c("aut"),
                     comment = c(ORCID = "0000-0001-6520-1397")),
             person("Jinlong","Zhang",
                     email = "jinlongzhang01@gmail.com",
                     role = c("ctb"),
                     comment = c("R/read_faa.R")),
             person("Nan","Xiao",
                     email = "me@nanx.me",
                     role = c("ctb"),
                     comment = c("R/calc_pseudo_comp.R")))
Description: A toolkit to predict antimicrobial peptides from protein sequences on a genome-wide scale.
    It incorporates two support vector machine models ("precursor" and "mature") 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, these models are designed to accept any type of protein as input
    and calculation of compositional properties has been optimised for high-throughput use. For details see Fingerhut et al. 2020 <doi:10.1101/2020.05.07.082412>.
URL: https://github.com/Legana/ampir
License: GPL-2
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.5.0)
Imports: Peptides, caret (>= 6.0.0), kernlab, Rcpp, parallel
RoxygenNote: 7.1.0
Suggests: testthat, knitr, rmarkdown, e1071
VignetteBuilder: knitr
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2020-05-11 12:17:42 UTC; legana
Author: Legana Fingerhut [aut, cre] (<https://orcid.org/0000-0002-2482-5336>),
  Ira Cooke [aut] (<https://orcid.org/0000-0001-6520-1397>),
  Jinlong Zhang [ctb] (R/read_faa.R),
  Nan Xiao [ctb] (R/calc_pseudo_comp.R)
Maintainer: Legana Fingerhut <legana.fingerhut@my.jcu.edu.au>
Repository: CRAN
Date/Publication: 2020-05-11 14:30:09 UTC
Built: R 4.1.0; x86_64-w64-mingw32; 2020-08-03 14:20:38 UTC; windows
Archs: i386, x64
