autonomics
This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see autonomics.
Generifying and intuifying cross-platform omics analysis
Bioconductor version: 3.15
This package offers a generic and intuitive solution for cross-platform omics data analysis. It has functions for import, preprocessing, exploration, contrast analysis and visualization of omics data. It follows a tidy, functional programming paradigm.
Author: Aditya Bhagwat [aut, cre], Shahina Hayat [aut], Anna Halama [ctb], Richard Cotton [ctb], Laure Cougnaud [ctb], Rudolf Engelke [ctb], Hinrich Goehlmann [sad], Karsten Suhre [sad], Johannes Graumann [aut, sad, rth]
Maintainer: Aditya Bhagwat <aditya.bhagwat at mpi-bn.mpg.de>
citation("autonomics")):
Installation
To install this package, start R (version "4.2") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("autonomics")
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("autonomics")| using_autonomics | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataImport, DimensionReduction, GeneExpression, MassSpectrometry, Preprocessing, PrincipalComponent, RNASeq, Software, Transcription |
| Version | 1.4.0 |
| In Bioconductor since | BioC 3.13 (R-4.1) (3 years) |
| License | GPL-3 |
| Depends | R (>= 4.0) |
| Imports | abind, assertive, BiocFileCache, BiocGenerics, colorspace, data.table, edgeR, ggplot2, ggrepel, graphics, grDevices, grid, gridExtra, limma, magrittr, matrixStats, methods, MultiAssayExperiment, parallel, pcaMethods, rappdirs, rlang, R.utils, readxl, S4Vectors, scales, stats, stringi, SummarizedExperiment, tidyr, tools, utils |
| System Requirements | |
| URL | https://github.com/bhagwataditya/autonomics |
| Bug Reports | https://bitbucket.org/graumannlabtools/autonomics |
See More
| Suggests | affy, AnnotationDbi, BiocManager, diagram, GenomicRanges, GEOquery, hgu95av2.db, ICSNP, knitr, lme4, lmerTest, MASS, mixOmics, mpm, nlme, org.Hs.eg.db, org.Mm.eg.db, RCurl, remotes, rmarkdown, ropls, Rsubread, rtracklayer, seqinr, statmod, testthat |
| 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 | autonomics_1.4.0.tar.gz |
| Windows Binary | autonomics_1.4.0.zip |
| macOS Binary (x86_64) | autonomics_1.4.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/autonomics |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/autonomics |
| Bioc Package Browser | https://code.bioconductor.org/browse/autonomics/ |
| Package Short Url | https://bioconductor.org/packages/autonomics/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.15 | Source Archive |