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greenelab / ADAGEpath

An R package (ADAGEpath) to perform signature analysis using methodology from the ADAGE manuscript
BSD 3-Clause "New" or "Revised" License
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Signature annotation and marginal activity #12

Closed tj8901nm closed 7 years ago

tj8901nm commented 7 years ago

This PR: loads operon data from the DOOR database into the package (data.R and operons.R) and annotates genes with their operons; adds a new file marginal_activity.R to calculate and plot marginal activities; rewrites the function annotate_signatures_with_genesets and adds a new function annotate_genes_in_signatures in annotate_signature.R; moves the function build_gene_signature_map from visualize_network.R to annotate_signature.R and uses the function annotate_genes_in_signatures in visualize_network.R;