Index

A

auto_read() (in module demultiplex_helper_funcs)

C

calc_ratio() (in module update_logs) check_same() (in module split_seth5ad_to_samph5ad) create_aggregate_matrix module create_Feat_Barc module create_h5ad_from_bustools module create_h5ad_from_calico_solo module

create_inp_cellSNP module create_inp_splitBam module create_inp_splitBam_gt_demux module create_wet_lab_info module

D

DAG demul_samples module demul_samples_ext_vS module

demultiplex_helper_funcs module demux_by_calico_solo() (in module demultiplex_helper_funcs) demux_by_vireo() (in module demultiplex_helper_funcs) demux_stats() (in module demultiplex_helper_funcs)

G

get_argument_parser() (in module create_aggregate_matrix) (in module create_Feat_Barc) (in module create_h5ad_from_bustools) (in module create_h5ad_from_calico_solo) (in module create_inp_cellSNP) (in module create_inp_splitBam) (in module create_inp_splitBam_gt_demux) (in module create_wet_lab_info) (in module demul_samples) (in module demul_samples_ext_vS) (in module split_seth5ad_to_samph5ad) (in module update_logs)

get_df() (in module update_logs) get_don_ids() (in module demul_samples_ext_vS) (in module demultiplex_helper_funcs) get_donors() (in module split_seth5ad_to_samph5ad) get_filename() (in module update_logs) get_info() (in module create_aggregate_matrix) get_latest_extra_columns() (in module update_logs) get_names_anno() (in module create_aggregate_matrix) get_subid() (in module create_wet_lab_info)

M

main() (in module create_aggregate_matrix) (in module create_Feat_Barc) (in module create_h5ad_from_bustools) (in module create_h5ad_from_calico_solo) (in module create_inp_cellSNP) (in module create_inp_splitBam) (in module create_inp_splitBam_gt_demux) (in module create_wet_lab_info) (in module demul_samples) (in module demul_samples_ext_vS) (in module split_seth5ad_to_samph5ad) (in module update_logs) module create_aggregate_matrix create_Feat_Barc create_h5ad_from_bustools create_h5ad_from_calico_solo create_inp_cellSNP create_inp_splitBam create_inp_splitBam_gt_demux create_wet_lab_info demul_samples demul_samples_ext_vS demultiplex_helper_funcs split_seth5ad_to_samph5ad update_logs

P

parse_file() (in module demultiplex_helper_funcs) pooled sample

preprocessing process_h5ad() (in module create_aggregate_matrix)

R

read_files_ext() (in module demul_samples_ext_vS) (in module split_seth5ad_to_samph5ad)

ret_htos_calico_solo() (in module demultiplex_helper_funcs) ret_subj_ids() (in module demul_samples_ext_vS) (in module demultiplex_helper_funcs)

S

save_df() (in module create_inp_splitBam) (in module create_inp_splitBam_gt_demux) set_don_ids() (in module demul_samples_ext_vS) (in module demultiplex_helper_funcs)

split_seth5ad_to_samph5ad module

U

update_logs module

W

write_logs() (in module update_logs)