evaluomeR
This is the released version of evaluomeR; for the devel version, see evaluomeR.
Evaluation of Bioinformatics Metrics
Bioconductor version: Release (3.23)
Evaluating the reliability of your own metrics and the measurements done on your own datasets by analysing the stability and goodness of the classifications of such metrics.
Author: José Antonio Bernabé-Díaz [aut, cre], Manuel Franco [aut], Juana-María Vivo [aut], Manuel Quesada-Martínez [aut], Astrid Duque-Ramos [aut], Jesualdo Tomás Fernández-Breis [aut]
Maintainer: José Antonio Bernabé-Díaz <joseantonio.bernabe1 at um.es>
citation("evaluomeR")):
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("evaluomeR")
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("evaluomeR")| Evaluation of Bioinformatics Metrics with evaluomeR | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Classification, Clustering, FeatureExtraction, Software |
| Version | 1.28.0 |
| In Bioconductor since | BioC 3.9 (R-3.6) (7.5 years) |
| License | GPL-3 |
| Depends | R (>= 3.6), SummarizedExperiment, MultiAssayExperiment, cluster (>= 2.0.9), fpc (>= 2.2-3), randomForest (>= 4.6.14), flexmix (>= 2.3.15), RSKC (>= 2.4.2), sparcl (>= 1.0.4) |
| Imports | corrplot (>= 0.84), grDevices, graphics, reshape2, ggplot2, ggdendro, plotrix, stats, matrixStats, Rdpack, MASS, class, prabclus, mclust, kableExtra, dplyr, dendextend (>= 1.16.0) |
| System Requirements | |
| URL | https://github.com/neobernad/evaluomeR |
| Bug Reports | https://github.com/neobernad/evaluomeR/issues |
See More
| Suggests | BiocStyle, knitr, rmarkdown, magrittr |
| 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 | evaluomeR_1.28.0.tar.gz |
| Windows Binary (x86_64) | evaluomeR_1.28.0.zip |
| macOS Binary (big-sur-x86_64) | evaluomeR_1.28.0.tgz |
| macOS Binary (sonoma-arm64) | evaluomeR_1.28.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/evaluomeR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/evaluomeR |
| Bioc Package Browser | https://code.bioconductor.org/browse/evaluomeR/ |
| Package Short Url | https://bioconductor.org/packages/evaluomeR/ |
| Package Downloads Report | Download Stats |