MCbiclust
This is the released version of MCbiclust; for the devel version, see MCbiclust.
Massive correlating biclusters for gene expression data and associated methods
Bioconductor version: Release (3.23)
Custom made algorithm and associated methods for finding, visualising and analysing biclusters in large gene expression data sets. Algorithm is based on with a supplied gene set of size n, finding the maximum strength correlation matrix containing m samples from the data set.
Author: Robert Bentham
Maintainer: Robert Bentham <robert.bentham.11 at ucl.ac.uk>
citation("MCbiclust")):
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("MCbiclust")
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("MCbiclust")| Introduction to MCbiclust | HTML | R Script |
| Reference Manual |
Details
| biocViews | Clustering, GeneExpression, ImmunoOncology, Microarray, RNASeq, Software, StatisticalMethod |
| Version | 1.36.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (9.5 years) |
| License | GPL-2 |
| Depends | R (>= 3.4) |
| Imports | BiocParallel, graphics, utils, stats, AnnotationDbi, GO.db, org.Hs.eg.db, GGally, ggplot2, scales, cluster, WGCNA |
| System Requirements | |
| URL |
See More
| Suggests | gplots, knitr, rmarkdown, BiocStyle, gProfileR, MASS, dplyr, pander, devtools, testthat, GSVA |
| 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 | MCbiclust_1.36.0.tar.gz |
| Windows Binary (x86_64) | MCbiclust_1.36.0.zip |
| macOS Binary (big-sur-x86_64) | MCbiclust_1.36.0.tgz |
| macOS Binary (sonoma-arm64) | MCbiclust_1.36.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MCbiclust |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MCbiclust |
| Bioc Package Browser | https://code.bioconductor.org/browse/MCbiclust/ |
| Package Short Url | https://bioconductor.org/packages/MCbiclust/ |
| Package Downloads Report | Download Stats |