An R package for the MoTrPAC community
Overview
The Molecular Transducers of Physical Activity Consortium (MoTrPAC) is a national research consortium designed to discover and perform the characterization of the “molecular map” that underlies the effects of physical activity in humans.
MotrpacBicQC provides a set of functions for Primary and Secondary QC/QA analysis of datasets generated by the Metabolomics, Targeted, and Untargeted Proteomics MoTrPAC Chemical Analysis Sites (CAS). It also provides additional functions and data objects for analysis.
Key Features
- Metabolomics QC — Validate metadata, results, and sample files for named/unnamed metabolomics batches. Includes RefMet name validation via the Metabolomics Workbench API.
- Proteomics QC — Check untargeted proteomics submissions including ratio files, RII, and vial metadata.
- Olink QC — Validate Olink proteomics metadata and sample files.
- Clinical Chemistry QC — Quality checks for lab-based clinical chemistry datasets.
- Data Visualization — Generate QC plots for metabolomics, proteomics, olink, and lab data.
- Cross-file Validation — Verify consistency across related files within a submission.
Package Updates
This package is frequently updated. Please, check the file NEWS.md to find out more about the changes affecting every version
Installation
Install from GitHub
install.packages("devtools")
devtools::install_github("MoTrPAC/MotrpacBicQC")Documentation
Full documentation is available at the pkgdown site.
The following vignettes are available:
Alternatively, once the package is installed, run the following command to access the same documentation:
browseVignettes("MotrpacBicQC")Follow this link for details of all the available functions
Citation
If you use MotrpacBicQC in your work, please cite it using the Zenodo DOI:
citation("MotrpacBicQC")
Help
Need help? Please, submit an issue here providing as many details as possible.