AmyloGram: Prediction of Amyloid Proteins
Version 1.0

Predicts amyloid proteins using random forests trained on the n-gram encoded peptides. The implemented algorithm can be accessed from both the command line and shiny-based GUI.

AuthorMichal Burdukiewicz [cre, aut], Piotr Sobczyk [ctb], Stefan Roediger [ctb]
Date of publication2016-09-24 13:40:09
MaintainerMichal Burdukiewicz <michalburdukiewicz@gmail.com>
LicenseGPL-3
Version1.0
URL https://github.com/michbur/AmyloGram
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("AmyloGram")

Getting started

Package overview
README.md

Popular man pages

AmyloGram_gui: AmyloGram Graphical User Interface
AmyloGram_model: Random forest model of amyloid proteins
AmyloGram-package: Prediction of amyloids
pep424: pep424 data set
print.ag_model: Print AmyloGram object
read_txt: Read sequences from .txt file
spec_sens: Specificity/sensitivity balance
See all...

All man pages Function index File listing

Man pages

AmyloGram_gui: AmyloGram Graphical User Interface
AmyloGram_model: Random forest model of amyloid proteins
AmyloGram-package: Prediction of amyloids
is_protein: Protein test
pep424: pep424 data set
predict.ag_model: Predict amyloids
print.ag_model: Print AmyloGram object
read_txt: Read sequences from .txt file
spec_sens: Specificity/sensitivity balance

Functions

AmyloGram Man page
AmyloGram-package Man page
AmyloGram_gui Man page Source code
AmyloGram_model Man page
is_protein Man page Source code
make_decision Source code
pep424 Man page
predict.ag_model Man page Source code
print.ag_model Man page Source code
read_txt Man page Source code
spec_sens Man page

Files

inst
inst/CITATION
inst/AmyloGram
inst/AmyloGram/ui.R
inst/AmyloGram/server.R
inst/AmyloGram/readme.md
inst/AmyloGram/www
inst/AmyloGram/www/shiny_paper.css
inst/AmyloGram/prots.txt
inst/AmyloGram/AmyloGram_logo.png
NAMESPACE
data
data/pep424.rda
data/spec_sens.rda
data/AmyloGram_model.rda
R
R/utils.R
R/predict.R
R/read_txt.R
R/AmyloGram_gui.R
R/print.R
R/is_protein.R
R/datasets.R
R/AmyloGram-package.R
README.md
MD5
DESCRIPTION
man
man/predict.ag_model.Rd
man/pep424.Rd
man/AmyloGram_gui.Rd
man/AmyloGram-package.Rd
man/is_protein.Rd
man/AmyloGram_model.Rd
man/read_txt.Rd
man/print.ag_model.Rd
man/spec_sens.Rd
AmyloGram documentation built on May 20, 2017, 4:03 a.m.

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