alpha                   Getters for linearFilter objects
as_tuned                convert tskrr models
create_grid             Create a grid of values for tuning tskrr
dim,tskrr-method        Get the dimensions of a tskrr object
drugTargetInteraction   drug target interactions for neural receptors
eigen2hat               Calculate the hat matrix from an eigen
                        decomposition
fitted.tskrr            extract the predictions
get_loo_fun             Retrieve a loo function
has_imputed_values      Getters for tskrrImpute objects
hat                     Return the hat matrix of a tskrr model
impute_tskrr            Impute missing values in a label matrix
impute_tskrr.fit        Impute values based on a two-step kernel ridge
                        regression
is_symmetric            Test symmetry of a matrix
is_tuned                Getters for tskrrTune objects
labels.tskrr            Extract labels from a tskrr object
linearFilter-class      Class linearFilter
linear_filter           Fit a linear filter over a label matrix
loo                     Leave-one-out cross-validation for tskrr
loo_internal            Leave-one-out cross-validation for two-step
                        kernel ridge regression
loss                    Calculate or extract the loss of a tskrr model
loss_functions          loss functions
match_labels            Reorder the label matrix
permtest                Calculate the relative importance of the edges
permtest-class          Class permtest
permutations            Getters for permtest objects
plot.tskrr              plot a heatmap of the predictions from a tskrr
                        model
plot_grid               Plot the grid of a tuned tskrr model
predict.tskrr           predict method for tskrr fits
proteinInteraction      Protein interaction for yeast
residuals               calculate residuals from a tskrr model
response,tskrr-method   Getters for tskrr objects
test_symmetry           test the symmetry of a matrix
tskrr                   Fitting a two step kernel ridge regression
tskrr-class             Class tskrr
tskrr.fit               Carry out a two-step kernel ridge regression
tskrrHeterogeneous-class
                        Class tskrrHeterogeneous
tskrrHomogeneous-class
                        Class tskrrHomogeneous
tskrrImpute-class       Class tskrrImpute
tskrrImputeHeterogeneous-class
                        Class tskrrImputeHeterogeneous
tskrrImputeHomogeneous-class
                        Class tskrrImputeHomogeneous
tskrrTune-class         Class tskrrTune
tskrrTuneHeterogeneous-class
                        Class tskrrTuneHeterogeneous
tskrrTuneHomogeneous-class
                        Class tskrrTuneHomogeneous
tune                    tune the lambda parameters for a tskrr
update                  Update a tskrr object with a new lambda
valid_dimensions        Functions to check matrices
valid_labels            Test the correctness of the labels.
weights,tskrrHeterogeneous-method
                        Extract weights from a tskrr model
xnet-package            Two-step kernel ridge regression for network
                        analysis
