Other packages > Find by keyword >

ampir  

Predict Antimicrobial Peptides
View on CRAN: Click here


Download and install ampir package within the R console
Install from CRAN:
install.packages("ampir")

Install from Github:
library("remotes")
install_github("cran/ampir")

Install by package version:
library("remotes")
install_version("ampir", "1.1.0")



Attach the package and use:
library("ampir")
Maintained by
Legana Fingerhut
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2019-12-06
Latest Update: 2021-06-29
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) . 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 best results it is important to select the model that accurately represents your sequence type: for full length proteins, it is recommended to use the default "precursor" model. The alternative, "mature", model is best suited for mature peptide sequences that represent the final antimicrobial peptide sequence after post-translational processing. For details see Fingerhut et al. (2020) . The 'ampir' package is also available via a Shiny based GUI at .
How to cite:
Legana Fingerhut (2019). ampir: Predict Antimicrobial Peptides. R package version 1.1.0, https://cran.r-project.org/web/packages/ampir
Previous versions and publish date:
0.1.0 (2019-12-06 10:50), 1.0.0 (2020-05-11 16:30)
Other packages that cited ampir R package
View ampir citation profile
Other R packages that ampir depends, imports, suggests or enhances
Downloads during the last 30 days
Get rewarded with contribution points by helping add
Reviews / comments / questions /suggestions ↴↴↴

Today's Hot Picks in Authors and Packages

critpath  
Setting the Critical Path in Project Management
Solving the problem of project management using CPM (Critical Path Method), PERT (Program Evaluation ...
Download / Learn more Package Citations See dependency  
quickcode  
Quick and Essential 'R' Tricks for Better Scripts
The NOT functions, 'R' tricks and a compilation of some simple quick plus often used 'R' codes to im ...
Download / Learn more Package Citations See dependency  
ftaproxim  
Fault Tree Analysis Based on Proxel Simulation
Calculation and plotting of instantaneous unavailabilities of basic events along with the top event ...
Download / Learn more Package Citations See dependency  
rdbnomics  
Download DBnomics Data
R access to hundreds of millions data series from DBnomics API (). ...
Download / Learn more Package Citations See dependency  
steepness  
Testing Steepness of Dominance Hierarchies
The steepness package computes steepness as a property of dominance hierarchies. Steepness is define ...
Download / Learn more Package Citations See dependency  
mistral  
Methods in Structural Reliability
Various reliability analysis methods for rare event inference (computing failure probability and qua ...
Download / Learn more Package Citations See dependency  

22,114

R Packages

188,080

Dependencies

55,244

Author Associations

22,115

Publication Badges

© Copyright 2022 - present. All right reserved, rpkg.net. Contact Us / Suggestions / Concerns