a b/TODOs.txt
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TODOs:
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* To find interesting pairs of genes:
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  - Look for anti-correlated features used in a model
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  - Look for features that appear together in trees more than expected.
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* test usage of laplace loss function
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* define function to annotate model features (currently done as part of plotting)
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* switch to CV using OOB of multiple bootstrapped samples? (however CV is easier than BS to understand)
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* cluster features
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* add text describibg model parameters (n.trees, int.depth, shrinkage)
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* generate table with all value presented in graph
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- add training model AUC p-val
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- print training model p-val in plot
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- predict all CCLE lines
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- add lineage barplot in plots
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- plot pred features of the same gene of the target feature.
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- look for features who don't correlate well with target overall across all models (so should have low Pearson correlation but high relative importance)
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- test whether better to color all bars in barplots (by value)
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CCLE fixes needed:
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- names for Expr$cls
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- all mutation features are available for the same number of lines (no?)