Removed default for weights within the optimization functions as a value will always be given

Signed-off-by: Eric Polley <eric.polley@nih.gov>
removed check for rank > ncol(X)

Signed-off-by: Eric Polley <eric.polley@nih.gov>
updated the require() line to use my .SL.require()

Signed-off-by: Eric Polley <eric.polley@nih.gov>
Added placeholder Sweave file for indexing the SuperLearner presentation file

Signed-off-by: Eric Polley <eric.polley@nih.gov>
Added summary.CV.SuperLearner

Signed-off-by: Eric Polley <eric.polley@nih.gov>
Cleaned up main vignette placeholder

Signed-off-by: Eric Polley <eric.polley@nih.gov>
Added plot.CV.SuperLearner and changed CV.SuperLearner to save Y in the output list (so summary.CV.SuperLearner no longer needs Y as an argument)

Signed-off-by: Eric Polley <eric.polley@nih.gov>
Cleaned up plot.CV.SuperLearner

Signed-off-by: Eric Polley <eric.polley@nih.gov>
Fixed missing "object" in summary.CV.SuperLearner

Signed-off-by: Eric Polley <eric.polley@nih.gov>
summary.CV.SuperLearner will now use the default method (method.NNLS) if no method was supplied when calling CV.SuperLearner

Signed-off-by: Eric Polley <eric.polley@nih.gov>
added requirements for README

Signed-off-by: Eric Polley <eric.polley@nih.gov>
added \dontrun around examples and bumped version number.

Signed-off-by: Eric Polley <eric.polley@nih.gov>
Changed \usage to correctly identify predict as an S3 method for SuperLearner class

Signed-off-by: Eric Polley <eric.polley@nih.gov>
Fixed problem with CV.SuperLearner not saving all the SuperLearner output

Signed-off-by: Eric Polley <eric.polley@nih.gov>
Added minbucket to SL.rpart

Signed-off-by: Eric Polley <eric.polley@nih.gov>
Added SL.rpartPrune wrapper

SL.rpartPrune includes internal pruning of the CART tree based on xval-fold cross-validation and selects the cp value for the tree with the minimum CV risk estimate.

Signed-off-by: Eric Polley <eric.polley@nih.gov>
Changed default for minbucket

Signed-off-by: Eric Polley <eric.polley@nih.gov>
Fixed parallel argument bug

Signed-off-by: Eric Polley <eric.polley@nih.gov>
Added SL.leekasso and fixed CV.SuperLearner parallel bug

Signed-off-by: Eric Polley <eric.polley@nih.gov>
transpose the X matrix! in SL.leekasso

Signed-off-by: Eric Polley <eric.polley@nih.gov>