Index

C

cell_num_estimator() (in module gmmd.estimator) check_set_bit() (in module gmmd.compute), [1] classify_drops() (in module gmmd.classifier), [1] clr_norm() (in module gmmd.io) compute_confidence() (in module gmmd.multi) compute_GEM_prob() (in module gmmd.estimator) compute_mix_rate() (in module gmmd.estimator) compute_multiplet_rates_asymp() (in module gmmd.estimator)

compute_observation_probability() (in module gmmd.estimator) compute_relative_SSM_rate() (in module gmmd.estimator), [1] compute_relative_SSM_rate_asymp() (in module gmmd.estimator) compute_scaler() (in module gmmd.compute), [1] compute_shared_num() (in module gmmd.estimator) compute_SSD_num() (in module gmmd.estimator), [1] compute_SSM_rate_with_cell_num() (in module gmmd.estimator), [1] count_bad_droplets() (in module gmmd.classifier), [1] count_by_class() (in module gmmd.classifier), [1]

D

debug_compute_doublet_num() (in module gmmd.estimator) debug_get_cell_num() (in module gmmd.estimator)

debug_pure_cluster_MSM_rate() (in module gmmd.estimator) drop_num_estimator() (in module gmmd.estimator)

E

estimator() (in module gmmd.estimator) examine_cluster_type() (in module gmmd.estimator)

excepthook() (in module main) experiment_params_wrapper() (in module gmmd.compute)

G

gather_multiplet_rates() (in module gmmd.compute), [1] get_HTO_cell_idx() (in module gmmd.multi) get_HTO_cell_num() (in module gmmd.multi) get_min_hto_num() (in module gmmd.estimator) get_shared_cell_idx() (in module gmmd.multi) get_shared_cell_num() (in module gmmd.multi) get_SSD_count_ary() (in module gmmd.classifier), [1] get_tau_cell_num() (in module gmmd.estimator), [1] gmmd module gmmd.classifier module

gmmd.compute module gmmd.estimator module gmmd.GMM_Demux module gmmd.io module gmmd.multi module

I

init_mask() (in module gmmd.compute), [1]

M

main module main() (in module gmmd.GMM_Demux) module gmmd gmmd.classifier gmmd.compute gmmd.estimator gmmd.GMM_Demux gmmd.io gmmd.multi main

O

obtain_arrays() (in module gmmd.classifier), [1] obtain_base_bv_array() (in module gmmd.compute), [1] obtain_experiment_params() (in module gmmd.compute), [1]

obtain_HTO_cell_n_drop_num() (in module gmmd.compute) obtain_HTO_GEM_num() (in module gmmd.compute), [1] obtain_MSM_list() (in module gmmd.classifier), [1] obtain_SSD_list() (in module gmmd.classifier), [1]

P

param_scaling() (in module gmmd.compute), [1] phony_cluster_MSM_rate() (in module gmmd.estimator), [1]

pure_cluster_MSM_rate() (in module gmmd.estimator), [1] purify_droplets() (in module gmmd.classifier), [1]

R

read_cellranger() (in module gmmd.io)

read_csv() (in module gmmd.io) read_full_classify_result() (in module gmmd.classifier), [1]

S

set_bit() (in module gmmd.compute), [1] store_cellranger() (in module gmmd.io)

store_full_classify_result() (in module gmmd.classifier), [1] store_simplified_classify_result() (in module gmmd.classifier), [1] store_summary_result() (in module gmmd.estimator)

T

test_phony_hypothesis() (in module gmmd.estimator), [1]

test_pure_hypothesis() (in module gmmd.estimator), [1]

W

warn() (in module gmmd.GMM_Demux)