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rdml: A Mathematica package for parsing and importing Real-Time qPCR data.
Ramiro Magno1,2, Isabel Duarte3,4, Raquel P Andrade3,5
1Theoretical Biology and Bioinformatics, Utrecht University, Padualaan 8, 3584 CH, Utrecht, The Netherlands. ramiro.magno@gmail.com.
BMC Research Notes
|June 14, 2017
Summary
This study introduces "rdml," a Mathematica package for importing Real-Time PCR data markup language (RDML) files. This tool facilitates gene expression data analysis and re-validation.
Area of Science:
- Bioinformatics
- Computational Biology
- Molecular Biology
Background:
- Real-Time quantitative PCR (qPCR) is crucial for gene expression quantification.
- The Real-Time PCR data markup language (RDML) standardizes qPCR data archiving and sharing.
- Efficient data import into analysis software is essential for reproducibility.
Purpose of the Study:
- To develop a package for seamless import of RDML data into Mathematica.
- To simplify the accessibility and utilization of qPCR experimental data.
- To promote re-analysis and meta-analysis of gene expression datasets.
Main Methods:
- Development of the "rdml" package for Mathematica.
- Implementation of parsing and data extraction functionalities for RDML files.
- Testing the package's ability to load and process RDML data.
Main Results:
- Successful creation of the "rdml" package for Mathematica.
- Demonstrated ease of importing and extracting relevant information from RDML files.
- Facilitation of gene expression data re-analysis and validation.
Conclusions:
- The "rdml" package enhances the utility of RDML data within the Mathematica environment.
- This tool supports reproducible research by simplifying data handling.
- Enables broader accessibility for gene expression data analysis and interpretation.
