AmyloGram: Prediction of Amyloid Proteins

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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.

Author
Michal Burdukiewicz [cre, aut], Piotr Sobczyk [ctb], Stefan Roediger [ctb]
Date of publication
2016-09-24 13:40:09
Maintainer
Michal Burdukiewicz <michalburdukiewicz@gmail.com>
License
GPL-3
Version
1.0
URLs

View on CRAN

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

Files in this package

AmyloGram
AmyloGram/inst
AmyloGram/inst/CITATION
AmyloGram/inst/AmyloGram
AmyloGram/inst/AmyloGram/ui.R
AmyloGram/inst/AmyloGram/server.R
AmyloGram/inst/AmyloGram/readme.md
AmyloGram/inst/AmyloGram/www
AmyloGram/inst/AmyloGram/www/shiny_paper.css
AmyloGram/inst/AmyloGram/prots.txt
AmyloGram/inst/AmyloGram/AmyloGram_logo.png
AmyloGram/NAMESPACE
AmyloGram/data
AmyloGram/data/pep424.rda
AmyloGram/data/spec_sens.rda
AmyloGram/data/AmyloGram_model.rda
AmyloGram/R
AmyloGram/R/utils.R
AmyloGram/R/predict.R
AmyloGram/R/read_txt.R
AmyloGram/R/AmyloGram_gui.R
AmyloGram/R/print.R
AmyloGram/R/is_protein.R
AmyloGram/R/datasets.R
AmyloGram/R/AmyloGram-package.R
AmyloGram/README.md
AmyloGram/MD5
AmyloGram/DESCRIPTION
AmyloGram/man
AmyloGram/man/predict.ag_model.Rd
AmyloGram/man/pep424.Rd
AmyloGram/man/AmyloGram_gui.Rd
AmyloGram/man/AmyloGram-package.Rd
AmyloGram/man/is_protein.Rd
AmyloGram/man/AmyloGram_model.Rd
AmyloGram/man/read_txt.Rd
AmyloGram/man/print.ag_model.Rd
AmyloGram/man/spec_sens.Rd