Version 0.15.0

[0.15.0] - 2020-09-29

Added

• Added additional columns to gimme maelstrom output for better intepretation (correlation of motif to signal and % of regions with motif).
• Added support for multi-species input in genome@chrom:start-end format.
• gimme maelstrom warns if data is not row-centered and will center by default.
• gimme maelstrom selects a set of non-redundant (or less redundant) motifs by default.
• Added SVR regressor for gimme maelstrom.
• Added quantile normalization to coverage_table.

Removed

• Removed the lightning classifiers and regressors as the package is no longer actively maintained.

Changed

• Visually improved HTML output.
• Score of maelstrom is now an aggregate z-score based on combining z-scores from individual methods using Stouffer's method. The z-scores of individual methods are generated using the inverse normal transform.
• Reorganized some classes and functions.

Fixed

• Fixed minor issues with sorting columns in HTML output.
• gimme motifs doesn't crash when no motifs are found.
• Fixed error with Ensembl chromosome names in combine_peaks.