Provides a set of methods for metabolomics data analysis, including data loading in different formats, pre-processing, metabolite identification, univariate and multivariate data analysis, machine learning, feature selection and pathway analysis. Case studies can be found on the website: <http://bio.di.uminho.pt/metabolomicspackage/index.html>. This package suggests 'rcytoscapejs', a package not in mainstream repositories. If you need to install it, use: devtools::install_github('cytoscape/[email protected]').
| Version: | 3.1.6 |
| Depends: | R (≥ 4.0.0) |
| Imports: | caret, e1071, ggplot2, impute, ellipse, GGally, pcaPP, compare, baseline, MASS, pls, readJDX, speaq, genefilter, RColorBrewer, grDevices, graphics, methods, stats, utils, Metrics, imputeTS, specmine.datasets, mrbin, plotly, narray |
| Suggests: | ggdendro, reticulate, qdap, qpdf, scatterplot3d, MAIT, xcms, KEGGgraph, KEGGREST, rcytoscapejs, rgl, grid, curl, RCurl, pins, knitr, rmarkdown |
| Published: | 2021-09-21 |
| Author: | Christopher Costa [aut], Marcelo Maraschin [aut], Miguel Rocha [aut, cre], Sara Cardoso [aut], Telma Afonso [aut], Bruno Pereira [aut], C. Beleites [cph], Jie Hao [cph], |
| Maintainer: | Miguel Rocha <mrocha at di.uminho.pt> |
| BugReports: | https://github.com/BioSystemsUM/specmine/issues |
| License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| URL: | https://github.com/BioSystemsUM/specmine |
| NeedsCompilation: | no |
| SystemRequirements: | Python (>=3.5.2) and the following python module: nmrglue. |
| Materials: | README |
| CRAN checks: | specmine results |
| Reference manual: | specmine.pdf |
| Vignettes: |
User guide to analyze 2D-NMR metabolomics' experiments using *specmine* package |
| Package source: | specmine_3.1.6.tar.gz |
| Windows binaries: | r-devel: specmine_3.1.5.zip, r-release: specmine_3.1.5.zip, r-oldrel: specmine_3.1.5.zip |
| macOS binaries: | r-release (arm64): specmine_3.1.5.tgz, r-release (x86_64): specmine_3.1.5.tgz, r-oldrel: specmine_3.1.5.tgz |
| Old sources: | specmine archive |
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