curatedPCaData
This is the development version of curatedPCaData; to use it, please install the devel version of Bioconductor.
Curated Prostate Cancer Data
Bioconductor version: Development (3.19)
The package curatedPCaData offers a selection of annotated prostate cancer datasets featuring multiple omics, manually curated metadata, and derived downstream variables. The studies are offered as MultiAssayExperiment (MAE) objects via ExperimentHub, and comprise of clinical characteristics tied to gene expression, copy number alteration and somatic mutation data. Further, downstream features computed from these multi-omics data are offered. Multiple vignettes help grasp characteristics of the various studies and provide example exploratory and meta-analysis of leveraging the multiple studies provided here-in.
Author: Teemu Daniel Laajala [aut, cre] 
, Jordan Creed [ctb], Christelle Colin Leitzinger [ctb], Varsha Sreekanth [ctb], Federico Calboli [ctb], Kalaimathy Singaravelu [ctb], Michael Orman [ctb], Alex Soupir [ctb], Anni Halkola [ctb]
Maintainer: Teemu Daniel Laajala <teelaa at utu.fi>
citation("curatedPCaData")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("curatedPCaData")
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("curatedPCaData")| Overview to curatedPCaData | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | CancerData, CopyNumberVariationData, ExperimentData, ExperimentHub, ExpressionData, GEO, Homo_sapiens_Data, MicroarrayData, ProstateCancerData, RNASeqData, ReproducibleResearch, Somatic |
| Version | 0.99.5 |
| License | CC BY 4.0 |
| Depends | R (>= 4.3.0), S4Vectors(>= 0.23.18), MultiAssayExperiment, RaggedExperiment |
| Imports | ExperimentHub, AnnotationHub, utils, methods, rlang, stats |
| System Requirements | |
| URL | https://github.com/Syksy/curatedPCaData |
| Bug Reports | https://github.com/Syksy/curatedPCaData/issues |
See More
| Suggests | BiocStyle, knitr, ggplot2, rmarkdown, survival, survminer, ComplexHeatmap, corrplot |
| 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 | curatedPCaData_0.99.5.tar.gz |
| Windows Binary | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/curatedPCaData |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/curatedPCaData |
| Package Short Url | https://bioconductor.org/packages/curatedPCaData/ |
| Package Downloads Report | Download Stats |