PhosR
This is the released version of PhosR; for the devel version, see PhosR.
A Set of Methods and Tools for Comprehensive Analysis of Phosphoproteomics Data
Bioconductor version: Release (3.21)
Comprehensive analysis of phosphoproteomics data. Provides methods and tools for filtering, imputation, normalisation, and downstream functional analysis to infer active kinases and signalling pathways.
Author: Di Xiao [aut, cre], Pengyi Yang [aut], Hani Jieun Kim [aut]
Maintainer: Di Xiao <di.xiao at sydney.edu.au>
citation("PhosR")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("PhosR")
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("PhosR")| An introduction to PhosR package | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Pathways, Proteomics, ResearchField, Software |
| Version | 1.18.5 |
| In Bioconductor since | BioC 3.12 (R-4.0) (5 years) |
| License | GPL-3 + file LICENSE |
| Depends | R (>= 4.3.0) |
| Imports | BiocGenerics, circlize, dendextend, dplyr, e1071, GGally, ggdendro, ggplot2, ggpubr, ggtext, graphics, grDevices, igraph, limma, methods, network, pcaMethods, pheatmap, preprocessCore, RColorBrewer, reshape2, rlang, ruv, S4Vectors, stats, stringi, SummarizedExperiment, tidyr, utils |
| System Requirements | |
| URL | https://bioconductor.org/packages/PhosR https://github.com/PYangLab/PhosR |
| Bug Reports | https://github.com/PYangLab/PhosR/issues |
See More
| Suggests | annotate, BiocStyle, calibrate, ClueR, directPA, knitr, org.Mm.eg.db, org.Rn.eg.db, reactome.db, rgl, rmarkdown, sna, stringr, testthat |
| 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 | PhosR_1.18.5.tar.gz |
| Windows Binary (x86_64) | PhosR_1.18.1.zip |
| macOS Binary (x86_64) | PhosR_1.18.5.tgz |
| macOS Binary (arm64) | PhosR_1.18.5.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/PhosR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/PhosR |
| Bioc Package Browser | https://code.bioconductor.org/browse/PhosR/ |
| Package Short Url | https://bioconductor.org/packages/PhosR/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.21 | Source Archive |