Calculating differentially expressed features across a trajectory
Included are methods to
- Calculate the overall feature importance, using
- Calculate the importance of a feature at a bifurcation point, using
The plotting of the top features is nicely intergrated into dynplot
news(package = "dynwrap") or NEWS.md for a
full list of
Recent changes in dynfeature 1.0.0 (28-03-2019)
MINOR CHANGE: Use only one core by default.
MINOR CHANGE: Support sparse matrices
Recent changes in dynfeature 0.2.0 (25-10-2018)
SPEED UP: Added
fi_ranger_rf_lite(), which scales much better w.r.t. the number of samples and features, at the cost of increasing loss of accuracy at higher dimension sizes.
MAJOR CHANGES: Large cleanup of the code. Most notably,
- The format of feature importance method specification and its
parameters, with format
fi_method = fi_example_method(param1 = 10, param2 = 4). Before, it had to be specified as
method = "example_method", method_params = list(param1 = 10, param2 = 4).
- The format of feature importance method specification and its parameters, with format
MINOR CHANGE: Whenever possible, output columns are now factors instead of characters.
MINOR CHANGE: Add NEWS, and add news section to README.
DOCUMENTATION: Turned on markdown for Roxygen.
DOCUMENTATION: Improved documentation on expression_source.
TESTING: Improved testing with a larger dataset, and will check whether the overall feature importance produces decent results.
MINOR CHANGE: Feature importance functions will always return factors instead of characters.