pmm
This is the development version of pmm; for the stable release version, see pmm.
Parallel Mixed Model
DOI: 10.18129/B9.bioc.pmm
Bioconductor version: Development (3.24)
The Parallel Mixed Model (PMM) approach is suitable for hit selection and cross-comparison of RNAi screens generated in experiments that are performed in parallel under several conditions. For example, we could think of the measurements or readouts from cells under RNAi knock-down, which are infected with several pathogens or which are grown from different cell lines.
Author: Anna Drewek
Maintainer: Anna Drewek <adrewek at stat.math.ethz.ch>
citation("pmm")):
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("pmm")
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("pmm")| User manual for R-Package PMM | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Regression, Software, SystemsBiology |
| Version | 1.45.0 |
| In Bioconductor since | BioC 3.1 (R-3.2) (11.5 years) |
| License | GPL-3 |
| Depends | R (>= 2.10) |
| Imports | lme4, splines |
| System Requirements | |
| URL |
See More
| Suggests | |
| 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 | pmm_1.45.0.tar.gz |
| Windows Binary (x86_64) | pmm_1.45.0.zip |
| macOS Binary (big-sur-x86_64) | pmm_1.45.0.tgz |
| macOS Binary (sonoma-arm64) | pmm_1.45.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/pmm |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/pmm |
| Bioc Package Browser | https://code.bioconductor.org/browse/pmm/ |
| Package Short Url | https://bioconductor.org/packages/pmm/ |
| Package Downloads Report | Download Stats |