Biclustering with Missing Data


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Documentation for package ‘biclustermd’ version 0.2.2

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biclustermd-package Bicluster data with non-random missing values
as.Biclust Convert a 'biclustermd' object to a 'Biclust' object
autoplot.biclustermd Make a heatmap of sparse biclustering results
autoplot.biclustermd_sim Plot similarity measures between two consecutive biclusterings.
autoplot.biclustermd_sse Plot sums of squared errors (SSEs) consecutive biclustering iterations.
biclustermd Bicluster data with non-random missing values
binary_vector_gen Make a binary vector with all values equal to zero except for one
cell_heatmap Make a heat map of bicluster cell sizes.
cell_mse Make a data frame containing the MSE for each bicluster cell
cluster_iteration_sum_sse Calculate the sum cluster SSE in each iteration
col.names A generic to gather column names
col.names.biclustermd Get data matrix column names and their corresponding column cluster membership
col_cluster_names Get column names in each column cluster
compare_biclusters Compare two biclusterings or a pair of partition matrices
fill_empties_P Randomly select a column prototype to fill an empty column prototype with
fill_empties_Q Randomly select a row prototype to fill an empty row prototype with
format_partition Format a partition matrix
gather.biclustermd Gather a biclustermd object
mse_heatmap Make a heatmap of cell MSEs
partition_gen Generate an intial, random partition matrix with N objects into K subsets/groups.
partition_gen_by_p Create a partition matrix with a partition vector p
part_matrix_to_vector Convert a partition matrix to a vector
position_finder Find the index of the first nonzero value in a vector
print.biclustermd Print an object of class biclustermd
reorder_biclust Reorder a bicluster object for making a heat map
rep_biclustermd Repeat a biclustering to achieve a minimum SSE solution
results_heatmap Make a heatmap of sparse biclustering results
row.names.biclustermd Get data matrix row names and their corresponding row cluster membership
row_cluster_names Get row names in each row cluster
runtimes Algorithm run time data
synthetic Synthetic data for examples.
tune_biclustermd Bicluster data over a grid of tuning parameters