Index A | C | D | E | G | H | I | L | M | P | S | V A add_entry() (in module intratalkerpy.tf.utils) add_node_type() (in module intratalkerpy.tf.utils) AverageExpression() (in module intratalkerpy.tf.utils) C calculate_coef_matrix_ridge() (in module intratalkerpy.perturbation.mt) calculate_effect_size_from_differences() (in module intratalkerpy.perturbation.ut) calculate_grid_arrows() (in module intratalkerpy.perturbation.ut) calculate_pseudotime_comparison() (in module intratalkerpy.perturbation.ut) combine_LR_and_TF() (in module intratalkerpy.tf.utils) combine_LR_and_TF_complexes() (in module intratalkerpy.tf.utils) compute_differential_pseudotime() (in module intratalkerpy.perturbation.ut) compute_pseudotime_gradient() (in module intratalkerpy.perturbation.ut) compute_receptor_coeff_stats() (in module intratalkerpy.perturbation.mt) condition_comparison_significant() (in module intratalkerpy.tf.get_condition_significant) create_unfiltered_tf_scores() (in module intratalkerpy.tf.utils) D differential_pseudotime_analysis() (in module intratalkerpy.perturbation.mt) E estimate_optimal_grid_size() (in module intratalkerpy.perturbation.ut) estimate_optimal_neighbors() (in module intratalkerpy.perturbation.ut) eval_meanchange_tag() (in module intratalkerpy.tf.utils) eval_pval() (in module intratalkerpy.tf.utils) G generate_CrossTalkeR_input() (in module intratalkerpy.tf.generate_intracellular_network) generate_intracellular_network() (in module intratalkerpy.tf.generate_intracellular_network) generate_receptome() (in module intratalkerpy.perturbation.ut) get_significant_tfs() (in module intratalkerpy.tf.get_significant_TFs) H h_clust() (in module intratalkerpy.tf.plot) I IntraTalker_analysis() (in module intratalkerpy.tf.IntraTalker_analysis) intratalkerpy.perturbation.mt module intratalkerpy.perturbation.pl module intratalkerpy.perturbation.ut module intratalkerpy.tf.generate_intracellular_network module intratalkerpy.tf.get_condition_significant module intratalkerpy.tf.get_significant_TFs module intratalkerpy.tf.IntraTalker_analysis module intratalkerpy.tf.plot module intratalkerpy.tf.tfobject module intratalkerpy.tf.utils module L load_csv() (in module intratalkerpy.tf.utils) load_tf_activities() (in module intratalkerpy.tf.utils) M make_TFOBj() (in module intratalkerpy.tf.tfobject) map_t_value() (in module intratalkerpy.tf.utils) module intratalkerpy.perturbation.mt intratalkerpy.perturbation.pl intratalkerpy.perturbation.ut intratalkerpy.tf.generate_intracellular_network intratalkerpy.tf.get_condition_significant intratalkerpy.tf.get_significant_TFs intratalkerpy.tf.IntraTalker_analysis intratalkerpy.tf.plot intratalkerpy.tf.tfobject intratalkerpy.tf.utils P permute_rows_nsign() (in module intratalkerpy.perturbation.mt) plot_condition_tf_activities() (in module intratalkerpy.tf.plot) plot_differential_pseudotime() (in module intratalkerpy.perturbation.pl) plot_metadata_given_ax() (in module intratalkerpy.perturbation.pl) plot_pseudotime_distributions() (in module intratalkerpy.perturbation.pl) plot_raw_vector_field() (in module intratalkerpy.perturbation.pl) plot_score_barplots() (in module intratalkerpy.perturbation.pl) plot_score_heatmap() (in module intratalkerpy.perturbation.pl) plot_smoothed_vector_field() (in module intratalkerpy.perturbation.pl) plot_tf_activity() (in module intratalkerpy.tf.plot) plot_top_variable_tfs() (in module intratalkerpy.tf.plot) project_perturbation_in_embedding() (in module intratalkerpy.perturbation.mt) S save_variable_tf_score() (in module intratalkerpy.tf.utils) simulation_of_perturbation() (in module intratalkerpy.perturbation.mt) V validate_grid_parameters() (in module intratalkerpy.perturbation.ut) validate_input_arguments() (in module intratalkerpy.tf.utils) vector_field_wrapper() (in module intratalkerpy.perturbation.pl)