TPP
This is the development version of TPP; for the stable release version, see TPP.
Analyze thermal proteome profiling (TPP) experiments
DOI: 10.18129/B9.bioc.TPP
Bioconductor version: Development (3.24)
Analyze thermal proteome profiling (TPP) experiments with varying temperatures (TR) or compound concentrations (CCR).
Author: Dorothee Childs [cre, aut], Nils Kurzawa [aut], Holger Franken [aut], Carola Doce [aut], Mikhail Savitski [aut], Wolfgang Huber [aut]
Maintainer: Dorothee Childs <d.childs at posteo.de>
citation("TPP")):
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("TPP")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | ImmunoOncology, MassSpectrometry, Proteomics, Software |
| Version | 3.41.0 |
| In Bioconductor since | BioC 3.1 (R-3.2) (11.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.4), Biobase, dplyr, magrittr, tidyr |
| Imports | biobroom, data.table, doParallel, foreach, futile.logger, ggplot2, grDevices, gridExtra, grid, knitr, limma, MASS, mefa, nls2, openxlsx (>= 2.4.0), parallel, plyr, purrr, RColorBrewer, RCurl, reshape2, rlang, rmarkdown, splines, stats, stringr, tibble, utils, VennDiagram, VGAM |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle, testthat |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | Rtpca |
| 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) | TPP_3.41.0.zip |
| macOS Binary (big-sur-x86_64) | TPP_3.41.0.tgz |
| macOS Binary (sonoma-arm64) | TPP_3.41.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/TPP |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/TPP |
| Package Short Url | https://bioconductor.org/packages/TPP/ |
| Package Downloads Report | Download Stats |