MLSeq
This is the released version of MLSeq; for the devel version, see MLSeq.
Machine Learning Interface for RNA-Seq Data
Bioconductor version: Release (3.23)
This package applies several machine learning methods, including SVM, bagSVM, Random Forest and CART to RNA-Seq data.
Author: Gokmen Zararsiz [aut, cre], Dincer Goksuluk [aut], Selcuk Korkmaz [aut], Vahap Eldem [aut], Izzet Parug Duru [ctb], Ahmet Ozturk [aut], Ahmet Ergun Karaagaoglu [aut, ths]
Maintainer: Gokmen Zararsiz <gokmenzararsiz at hotmail.com>
citation("MLSeq")):
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("MLSeq")
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("MLSeq")| Beginner's guide to the "MLSeq" package | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Classification, Clustering, ImmunoOncology, RNASeq, Sequencing, Software |
| Version | 2.30.0 |
| In Bioconductor since | BioC 2.14 (R-3.1) (12.5 years) |
| License | GPL(>=2) |
| Depends | caret, ggplot2 |
| Imports | testthat, VennDiagram, pamr, methods, DESeq2, edgeR, limma, Biobase, SummarizedExperiment, plyr, foreach, utils, sSeq, xtable |
| System Requirements | |
| URL |
See More
| Suggests | knitr, e1071, kernlab |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | GARS |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | MLSeq_2.30.0.tar.gz |
| Windows Binary (x86_64) | MLSeq_2.30.0.zip (64-bit only) |
| macOS Binary (big-sur-x86_64) | MLSeq_2.30.0.tgz |
| macOS Binary (sonoma-arm64) | MLSeq_2.30.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MLSeq |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MLSeq |
| Bioc Package Browser | https://code.bioconductor.org/browse/MLSeq/ |
| Package Short Url | https://bioconductor.org/packages/MLSeq/ |
| Package Downloads Report | Download Stats |