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idpr

Profiling and Analyzing Intrinsically Disordered Proteins in R


Bioconductor version: Release (3.18)

‘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>

Citation (from within R, enter citation("idpr")):

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")
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 HTML R Script
Reference Manual PDF

Details

biocViews CellBiology, Proteomics, Software, StructuralPrediction
Version 1.12.0
In Bioconductor since BioC 3.12 (R-4.0) (3.5 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)
System Requirements
URL
Bug Reports https://github.com/wmm27/idpr/issues
See More
Suggests knitr, rmarkdown, msa, ape, testthat, seqinr
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package idpr_1.12.0.tar.gz
Windows Binary idpr_1.12.0.zip
macOS Binary (x86_64) idpr_1.12.0.tgz
macOS Binary (arm64) idpr_1.12.0.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