fastLiquidAssociation
This is the released version of fastLiquidAssociation; for the devel version, see fastLiquidAssociation.
functions for genome-wide application of Liquid Association
Bioconductor version: Release (3.23)
This package extends the function of the LiquidAssociation package for genome-wide application. It integrates a screening method into the LA analysis to reduce the number of triplets to be examined for a high LA value and provides code for use in subsequent significance analyses.
Author: Tina Gunderson
Maintainer: Tina Gunderson <gunderson.tina at gmail.com>
citation("fastLiquidAssociation")):
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")
BiocManager::install("fastLiquidAssociation")
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("fastLiquidAssociation")| fastLiquidAssociation Vignette | R Script | |
| Reference Manual |
Details
| biocViews | CellBiology, GeneExpression, Genetics, Pathways, Software |
| Version | 1.48.0 |
| In Bioconductor since | BioC 2.14 (R-3.1) (12.5 years) |
| License | GPL-2 |
| Depends | methods, LiquidAssociation, parallel, doParallel, stats, Hmisc, utils |
| Imports | WGCNA, impute, preprocessCore |
| System Requirements | |
| URL |
See More
| Suggests | GOstats, yeastCC, org.Sc.sgd.db |
| 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 | fastLiquidAssociation_1.48.0.tar.gz |
| Windows Binary (x86_64) | fastLiquidAssociation_1.48.0.zip |
| macOS Binary (big-sur-x86_64) | fastLiquidAssociation_1.48.0.tgz |
| macOS Binary (sonoma-arm64) | fastLiquidAssociation_1.48.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/fastLiquidAssociation |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/fastLiquidAssociation |
| Bioc Package Browser | https://code.bioconductor.org/browse/fastLiquidAssociation/ |
| Package Short Url | https://bioconductor.org/packages/fastLiquidAssociation/ |
| Package Downloads Report | Download Stats |