Package index

Stability Selection

Preform stability selection.

stability_selection() is_stab_sel() print(<stab_sel>) summary(<stab_sel>) plot(<stab_sel>)

Stability Selection

Calculating FDR

Calculate the empirical false discovery rates (FDR) via permutations of the NULL model (randomized permutations).

calc_emp_fdr() calc_emp_fdr_breaks() plot_emp_fdr() plot_permuted_data()

Calculate Empirical Number of False Positives

Stable Features

Return the stable features at various probability thresholds.

get_stable_features()

Calculate Stable Features

Plotting Routines

Various plot traces of stability paths or cluster plots.

calc_emp_fdr() calc_emp_fdr_breaks() plot_emp_fdr() plot_permuted_data()

Calculate Empirical Number of False Positives

progeny_cluster() is_pclust() plot(<pclust>) print(<pclust>)

Perform Progeny Clustering

stability_selection() is_stab_sel() print(<stab_sel>) summary(<stab_sel>) plot(<stab_sel>)

Stability Selection

Progeny and Stability Clustering

Preform progeny clustering and stability clustering.

progeny_cluster() is_pclust() plot(<pclust>) print(<pclust>)

Perform Progeny Clustering

stability_cluster()

Perform Stability Clustering

Data

Two data sets with clustering structure.

clust_data progeny_data

Package Objects