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MetaboAnalystR: an R package for flexible and reproducible analysis of metabolomics data
Open accessAbstract
Summary: The MetaboAnalyst web application has been widely used for metabolomics data analysis and interpretation. Despite its user-friendliness, the web interface has presented its inherent limitations (especially for advanced users) with regard to flexibility in creating customized workflow, support for reproducible analysis, and capacity in dealing with large data. To address these limitations, we have developed a companion R package (MetaboAnalystR) based on the R code base of the web server. The package has been thoroughly tested to ensure that the same R commands will produce identical results from both interfaces. MetaboAnalystR complements the MetaboAnalyst web server to facilitate transparent, flexible and reproducible analysis of metabolomics data. Availability and implementation: MetaboAnalystR is freely available from https://github.com/xia-lab/MetaboAnalystR.
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Cited by
Perakakis, N., Polyzos, S. A., Yazdani, A., Sala-Vila, A., Kountouras, J., Anastasilakis, A. D., & Mantzoros, C. S. (2019) · Metabolism · doi:10.1016/j.metabol.2019.154005 · Cited by 137
Discovery of drug-omics associations in type 2 diabetes with generative deep-learning models
Allesøe, R. L., Lundgaard, A. T., Hernández Medina, R., Aguayo-Orozco, A., Johansen, J., Nissen, J. N., Brorsson, C., Mazzoni, G., Niu, L., Biel, J. H., et al. (2023) · Nature Biotechnology · doi:10.1038/s41587-022-01520-x · Cited by 111
Bastos, R. W., Valero, C., Silva, L. P., Schoen, T., Drott, M., Brauer, V., Silva-Rocha, R., Lind, A., Steenwyk, J. L., Rokas, A., et al. (2020) · mSphere · doi:10.1128/msphere.00153-20 · Cited by 60
Multiomics Implicate Gut Microbiota in Altered Lipid and Energy Metabolism in Parkinson’s Disease
Pereira, P. A. B., Trivedi, D. K., Silverman, J., Duru, I. C., Paulin, L., Auvinen, P., & Scheperjans, F. (2022) · npj Parkinson s Disease · doi:10.1038/s41531-022-00300-3 · Cited by 40
Chantzichristos, D., Svensson, P.-A., Garner, T., Glad, C. A., Walker, B. R., Bergthorsdottir, R., Ragnarsson, O., Trimpou, P., Stimson, R. H., Borresen, S. W., et al. (2021) · eLife · doi:10.7554/elife.62236 · Cited by 36
Metadata
- Authors
- Chong, J., & Xia, J.
- Venue
- Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 2018-06-28
- Volume
- 34
- Issue
- 24
- Pages
- 4313-4314
- ISSN
- 1367-4803 (ISSN-L)
- 1367-4811
- OpenAlex
- W2809895957
- Cited by
- 785
- References
- 0
- FWCI
- 21.89
- Type
- journal article
- Language
- en
- Open access
- hybrid
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- Chong, J., & Xia, J. (2018). MetaboAnalystR: an R package for flexible and reproducible analysis of metabolomics data. Bioinformatics. https://doi.org/10.1093/bioinformatics/bty528
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
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