idpr
Profiling and Analyzing Intrinsically Disordered Proteins in R
Bioconductor version: Release (3.19)
‘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("idpr")):
Installation
To install this package, start R (version "4.4") 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 |
Details
| biocViews | CellBiology, Proteomics, Software, StructuralPrediction |
| Version | 1.14.0 |
| In Bioconductor since | BioC 3.12 (R-4.0) (4 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, pwalign, 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_1.14.0.tar.gz |
| Windows Binary (x86_64) | idpr_1.14.0.zip |
| macOS Binary (x86_64) | idpr_1.14.0.tgz |
| macOS Binary (arm64) | idpr_1.14.0.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 |