idpr

DOI: 10.18129/B9.bioc.idpr  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see idpr.

Profiling and Analyzing Intrinsically Disordered Proteins in R

Bioconductor version: 3.17

‘idpr’ aims to integrate tools for the computational analysis of intrinsically disordered proteins (IDPs) within R. This package is used to identify known characteristics of IDPs for a sequence of interest with easily reported and dynamic results. Additionally, this package includes tools for IDP-based sequence analysis to be used in conjunction with other R packages. Described in McFadden WM & Yanowitz JL (2022). "idpr: A package for profiling and analyzing Intrinsically Disordered Proteins in R." PloS one, 17(4), e0266929. .

Author: William M. McFadden [cre, aut], Judith L. Yanowitz [aut, fnd], Michael Buszczak [ctb, fnd]

Maintainer: William M. McFadden <wmm27 at pitt.edu>

Installation

To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("idpr")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("idpr")

 

HTML	R Script	Charge and Hydropathy Vignette
HTML	R Script	Disordered Matrices Vignette
HTML	R Script	idpr Package Overview Vignette
HTML	R Script	IUPred Vignette
HTML	R Script	Sequence Map Vignette
HTML	R Script	Structural Tendency Vignette
PDF		Reference Manual

Details

biocViews	CellBiology, Proteomics, Software, StructuralPrediction
Version	1.10.0
In Bioconductor since	BioC 3.12 (R-4.0) (3 years)
License	LGPL (>= 3)
Depends	R (>= 4.1.0)
Imports	ggplot2 (>= 3.3.0), magrittr (>= 1.5), dplyr (>= 0.8.5), plyr (>= 1.8.6), jsonlite (>= 1.6.1), rlang (>= 0.4.6), Biostrings(>= 2.56.0), methods (>= 4.0.0)
LinkingTo
Suggests	knitr, rmarkdown, msa, ape, testthat, seqinr
SystemRequirements
Enhances
URL
BugReports	https://github.com/wmm27/idpr/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	idpr_1.10.0.tar.gz
Windows Binary	idpr_1.10.0.zip
macOS Binary (x86_64)	idpr_1.10.0.tgz
macOS Binary (arm64)	idpr_1.10.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/idpr
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/idpr
Bioc Package Browser	https://code.bioconductor.org/browse/idpr/
Package Short Url	https://bioconductor.org/packages/idpr/
Package Downloads Report	Download Stats