CLeaning to Analysis: Reproducibility-based Interface for Traits and Exposures
The goal of
clarite is to guide a dataset from the “raw” data stage to EWAS analysis and
subsequent visualization of results. The package is designed to lead a user through the
stages of data cleaning: from generating descriptive statistics, to making QC decisions
informed by the descriptive statistics, to running analyses on the filtered dataset and
visualizing the results.
A development version of the package can be installed using devtools.
The following image depicts a typical workflow for a project from raw data stage to analysis, in this case an
Environment-Wide Association Study, and results visualization, all of which can be performed using the
package. The user starts with raw data and alternates filtering (dark boxes) or summary steps (light boxes) until it is sufficiently “cleaned” and in a stage where analyses can be run.