notameViz
Workflow for non-targeted LC-MS metabolic profiling
Bioconductor version: 3.24 · Package version: 1.3.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
Provides visualization functionality for untargeted LC-MS metabolomics research. Includes quality control visualizations, feature-wise visualizations and results visualizations.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("notameViz")Details
| Maintainer | Vilhelm Suksi <vksuks@utu.fi> |
| Author | Anton Klåvus [aut, cph] (ORCID: <https://orcid.org/0000-0003-2612-0230>), Jussi Paananen [aut, cph] (ORCID: <https://orcid.org/0000-0001-5100-4907>), Oskari Timonen [aut, cph] (ORCID: <https://orcid.org/0000-0002-6317-6260>), Atte Lihtamo [aut], Vilhelm Suksi [aut, cre] (ORCID: <https://orcid.org/0009-0005-1108-518X>), Retu Haikonen [aut] (ORCID: <https://orcid.org/0000-0003-0830-3850>), Leo Lahti [aut] (ORCID: <https://orcid.org/0000-0001-5537-637X>), Kati Hanhineva [aut] (ORCID: <https://orcid.org/0000-0001-6834-7375>), Ville Koistinen [ctb] (ORCID: <https://orcid.org/0000-0003-1587-8361>), Olli Kärkkäinen [ctb] (ORCID: <https://orcid.org/0000-0003-0825-4956>), Artur Sannikov [ctb] |
| License | MIT + file LICENSE |
| URL | https://github.com/hanhineva-lab/notameViz |
| Bug Reports | https://github.com/hanhineva-lab/notameViz/issues |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | BatchEffect, BiomedicalInformatics, DataImport, MassSpectrometry, Metabolomics, MultipleComparison, Normalization, Preprocessing, QualityControl, Software, Visualization |
| Package Short Url | https://bioconductor.org/packages/notameViz/ |
Citation
From within R, enter citation("notameViz"):
Anton Klåvus, Jussi Paananen, Oskari Timonen, Atte Lihtamo, Vilhelm Suksi, Retu Haikonen, Leo Lahti, Kati Hanhineva. notameViz: Workflow for non-targeted LC-MS metabolic profiling. doi:10.18129/B9.bioc.notameViz, R package version 1.3.0, https://bioconductor.org/packages/notameViz.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | notameViz_1.3.0.tar.gz |
| Windows binary (x86_64) | notameViz_1.3.0.zip |
| macOS binary (arm64) | notameViz_1.3.0.tgz |
| macOS binary (x86_64) | notameViz_1.3.0.tgz |
Dependencies
Depends: R (>= 4.5.0), ggplot2, SummarizedExperiment
Imports: BiocGenerics, cowplot, devEMF, dplyr, ggbeeswarm, ggdendro, ggrepel, grDevices, limma, methods, notame, pcaMethods, qpdf, Rtsne, scales, stringr, stats, tibble, tidyr, utils
Suggests: batchCorr, BiocStyle, igraph, knitr, notameStats, testthat
Reverse dependencies
Suggests Me (2): notame, notameStats