- a -

• assign_low_density_frames() : Clustering::Density

- c -

• calculate_free_energies() : Clustering::Density
• calculate_populations() : Clustering::Density , Clustering::Density::MPI , Clustering::Density::OpenCL
• compute_box_grid() : Clustering::Density
• compute_sigma2() : Clustering::Density

- d -

• debug() : Clustering

- f -

• fixed_metastability_clustering() : Clustering::MPP
• free_coords() : Clustering::Tools

- h -

• high_density_neighborhood() : Clustering::Density , Clustering::Density::MPI

- i -

• initial_density_clustering() : Clustering::Density
• is_valid_box() : Clustering::Density

- l -

• logger() : Clustering
• lumped_trajectory() : Clustering::MPP

- m -

• main() : Clustering::Density , Clustering::Density::MPI , Clustering::Filter , Clustering::MPP , Clustering::NetworkBuilder
• microstate_min_free_energy() : Clustering::MPP
• microstate_populations() : Clustering::MPP , Clustering::Tools
• most_probable_path() : Clustering::MPP

- n -

• nearest_neighbors() : Clustering::Density::MPI , Clustering::Density
• neighbor_box() : Clustering::Density

- p -

• path_sinks() : Clustering::MPP

- r -

• read_clustered_trajectory() : Clustering::Tools
• read_coords() : Clustering::Tools
• read_free_energies() : Clustering::Tools
• read_neighborhood() : Clustering::Tools
• read_single_column() : Clustering::Tools
• row_normalized_transition_probabilities() : Clustering::MPP

- s -

• single_step_future_state() : Clustering::MPP
• sorted_free_energies() : Clustering::Density
• string_to_num() : Clustering::Tools
• stringprintf() : Clustering::Tools

- t -

• transition_counts() : Clustering::MPP
• triangular_load_balance() : Clustering::Density::MPI::anonymous_namespace{density_clustering_mpi.cpp}

- w -

• write_clustered_trajectory() : Clustering::Tools
• write_fes() : Clustering::Tools
• write_map() : Clustering::Tools
• write_neighborhood() : Clustering::Tools
• write_pops() : Clustering::Tools
• write_single_column() : Clustering::Tools