SantosJGND/Galaxy_KDE_classifier: Working release of Galaxy_KDE_classifier

Software for the exploratory analysis of genetic variation across overlapping windows of consecutive markers in large genomics data sets. Feature reduction is combined with kernel density estimation to derive sample-level p-values relative to supervised (reference, user submitted) and unsupervised (MeanShift) local distributions.

This initial layer of analysis is complented with tools to describe the statistics extracted visually (in the form of ideograms) and quantitavely (see /Summary_functions sub-directory). The latter includes scripts for the visual interpretation of summary analyses. Examples from the analysis of variation in the 3,000 Rice Genomes data set are provided.

A small example data set for local execution is provided in the /Simulation_test directory. Main and Ideogram scripts are available through the Galaxy portal.

For more details refer to the readme file in the main directory or contact us directly.

• This release solves a number of issues with the local execution of Main and Ideogram Files.
• Simulation documentation is updated.
• Links to example dash applications built on downstream analyses (under development) are included.