DaparToolshedData
This is the development version of DaparToolshedData; to use it, please install the devel version of Bioconductor.
Data accompanying the DaparToolshed and Prostar 2 packages
Bioconductor version: Development (3.24)
Mass-spectrometry based UPS proteomics data sets from Ramus C, Hovasse A, Marcellin M, Hesse AM, Mouton-Barbosa E, Bouyssie D, Vaca S, Carapito C, Chaoui K, Bruley C, Garin J, Cianferani S, Ferro M, Dorssaeler AV, Burlet-Schiltz O, Schaeffer C, Coute Y, Gonzalez de Peredo A. Spiked proteomic standard dataset for testing label-free quantitative software and statistical methods. Data Brief. 2015 Dec 17;6:286-94 and Giai Gianetto, Q., Combes, F., Ramus, C., Bruley, C., Coute, Y., Burger, T. (2016). Calibration plot for proteomics: A graphical tool to visually check the assumptions underlying FDR control in quantitative experiments. Proteomics, 16(1), 29-32.
Author: Samuel Wieczorek [aut, cre]
, Enora Fremy [aut]
Maintainer: Samuel Wieczorek <samuel.wieczorek at cea.fr>
citation("DaparToolshedData")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("DaparToolshedData")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | ExperimentData, ExperimentHub, MassSpectrometryData |
| Version | 0.99.21 |
| License | GPL-2 |
| Depends | R (>= 4.5.0) |
| Imports | S4Vectors, utils, QFeatures, ExperimentHub, AnnotationHub |
| System Requirements | |
| URL | https://github.com/edyp-lab/DaparToolshedData https://edyp-lab.github.io/DaparToolshedData/ |
| Bug Reports | https://github.com/edyp-lab/DaparToolshedData/issues |
See More
| Suggests | rmarkdown, BiocStyle, testthat, knitr |
| 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 | |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/DaparToolshedData |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/DaparToolshedData |
| Package Short Url | https://bioconductor.org/packages/DaparToolshedData/ |
| Package Downloads Report | Download Stats |