MatrixQCvis
MatrixQCvis is a software tool for first-line data quality assessment and exploratory data analysis of quantitative omics experiments such as transcriptomics, proteomics, and metabolomics. It presents data quality metrics at the sample and feature levels using the Rshiny framework, providing an efficient and standardized way to analyze the data quality of matrix-like formats. MatrixQCvis integrates with existing workflows using the Bioconductor SummarizedExperiment S4 class.
Topic
Proteomics;Metabolomics;Transcriptomics;Workflows
Detail
Operation: Quantification;Visualisation
Software interface: Command-line user interface
Language: R
License: The GNU General Public License v3.0
Cost: Free
Version name: 1.10.0
Credit: The Bundesministerium für Bildung und Forschung.
Input: -
Output: -
Contact: Thomas Naake thomasnaake@googlemail.com
Collection: -
Maturity: Stable
Publications
- MatrixQCvis: shiny-based interactive data quality exploration for omics data
- Naake T, Huber W. MatrixQCvis: shiny-based interactive data quality exploration for omics data. Bioinformatics. 2022 Jan 27;38(4):1181-1182. doi: 10.1093/bioinformatics/btab748. PMID: 34788796; PMCID: PMC8796383.
- https://doi.org/10.1101/2021.06.17.448827
- PMID: 34788796
- PMC: PMC8796383
Download and documentation
Source: https://www.bioconductor.org/packages/release/bioc/src/contrib/MatrixQCvis_1.10.0.tar.gz
Documentation: https://www.bioconductor.org/packages/release/bioc/manuals/MatrixQCvis/man/MatrixQCvis.pdf
Home page: https://www.bioconductor.org/packages/release/bioc/html/MatrixQCvis.html
Links: https://www.bioconductor.org/packages/release/bioc/vignettes/MatrixQCvis/inst/doc/MatrixQCvis.html
Links: https://www.bioconductor.org/packages/release/bioc/vignettes/MatrixQCvis/inst/doc/MatrixQCvis.R
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