PhosR
A set of methods and tools for comprehensive analysis of phosphoproteomics data
Bioconductor version: 3.23 · Package version: 1.22.0
PhosR is a package for the comprenhensive analysis of phosphoproteomic data. There are two major components to PhosR: processing and downstream analysis. PhosR consists of various processing tools for phosphoproteomics data including filtering, imputation, normalisation, and functional analysis for inferring active kinases and signalling pathways.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("PhosR") Details
| Maintainer | Di Xiao <di.xiao@sydney.edu.au> |
| Author | Pengyi Yang [aut], Di Xiao [aut, cre], Hani Jieun Kim [aut] |
| License | GPL-3 + file LICENSE |
| Downloads rank | 451 |
| Source branch | RELEASE_3_23 |
| biocViews | Proteomics, ResearchField, Software |
Documentation
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Dependencies
Depends: R (>= 4.2.0)
Imports: ruv, e1071, dendextend, limma, pcaMethods, stats, RColorBrewer, circlize, dplyr, igraph, pheatmap, preprocessCore, tidyr, rlang, graphics, grDevices, utils, SummarizedExperiment, methods, S4Vectors, BiocGenerics, ggplot2, GGally, ggdendro, ggpubr, network, reshape2, ggtext, stringi
Suggests: testthat, knitr, rgl, sna, ClueR, directPA, rmarkdown, org.Rn.eg.db, org.Mm.eg.db, reactome.db, annotate, BiocStyle, stringr, calibrate
Reverse dependencies
Suggests Me (1): SmartPhos