Index
A
|
B
|
C
|
D
|
E
|
F
|
G
|
M
|
P
|
R
|
S
|
T
|
U
|
W
A
add_to_file_handler() (in module bioflow.utils.log_behavior)
B
bioflow (module)
bioflow.algorithms_bank (module)
bioflow.algorithms_bank.flow_calculation_methods (module)
bioflow.algorithms_bank.flow_significance_evaluation (module)
bioflow.algorithms_bank.sampling_policies (module)
bioflow.annotation_network (module)
bioflow.bio_db_parsers (module)
bioflow.bio_db_parsers.ComplexPortalParser (module)
bioflow.bio_db_parsers.geneOntologyParser (module)
bioflow.bio_db_parsers.PhosphositeParser (module)
bioflow.bio_db_parsers.proteinRelParsers (module)
bioflow.bio_db_parsers.uniprotParser (module)
bioflow.cli (module)
bioflow.db_importers (module)
bioflow.molecular_network (module)
bioflow.neo4j_db (module)
bioflow.pre_processing (module)
bioflow.pre_processing.remap_IDs (module)
bioflow.utils (module)
bioflow.utils.general_utils (module)
bioflow.utils.general_utils.high_level_os_io (module)
bioflow.utils.general_utils.internet_io (module)
bioflow.utils.general_utils.useful_wrappers (module)
bioflow.utils.log_behavior (module)
C
characterize_flow_parameters() (in module bioflow.algorithms_bank.sampling_policies)
check_hash() (in module bioflow.utils.general_utils.internet_io)
clear_logs() (in module bioflow.utils.log_behavior)
copy_if_doesnt_exist() (in module bioflow.utils.general_utils.high_level_os_io)
D
debug_wrapper() (in module bioflow.utils.general_utils.useful_wrappers)
E
end_block() (bioflow.bio_db_parsers.uniprotParser.UniProtParser method)
evaluate_ops() (in module bioflow.algorithms_bank.flow_calculation_methods)
F
flush_block() (bioflow.bio_db_parsers.geneOntologyParser.GOTermsParser method)
G
general_flow() (in module bioflow.algorithms_bank.flow_calculation_methods)
get_access_dicts() (bioflow.bio_db_parsers.uniprotParser.UniProtParser method)
get_logger() (in module bioflow.utils.log_behavior)
get_neighboring_degrees() (in module bioflow.algorithms_bank.flow_significance_evaluation)
get_p_val_by_gumbel() (in module bioflow.algorithms_bank.flow_significance_evaluation)
GOTermsParser (class in bioflow.bio_db_parsers.geneOntologyParser)
M
marbach_post_proc() (in module bioflow.utils.general_utils.internet_io)
matched_sample_distribution() (in module bioflow.algorithms_bank.sampling_policies)
matched_sampling() (in module bioflow.algorithms_bank.sampling_policies)
mkdir_recursive() (in module bioflow.utils.general_utils.high_level_os_io)
(in module bioflow.utils.log_behavior)
my_timer() (in module bioflow.utils.general_utils.useful_wrappers)
P
parse_bio_grid() (in module bioflow.bio_db_parsers.proteinRelParsers)
parse_complex_portal() (in module bioflow.bio_db_parsers.ComplexPortalParser)
parse_gene_references() (bioflow.bio_db_parsers.uniprotParser.UniProtParser method)
parse_go_terms() (bioflow.bio_db_parsers.geneOntologyParser.GOTermsParser method)
parse_hint() (in module bioflow.bio_db_parsers.proteinRelParsers)
parse_line_in_block() (bioflow.bio_db_parsers.geneOntologyParser.GOTermsParser method)
parse_name() (bioflow.bio_db_parsers.uniprotParser.UniProtParser method)
parse_phosphosite() (in module bioflow.bio_db_parsers.PhosphositeParser)
parse_uniprot() (bioflow.bio_db_parsers.uniprotParser.UniProtParser method)
parse_xref() (bioflow.bio_db_parsers.uniprotParser.UniProtParser method)
print_version() (in module bioflow.cli)
process_line() (bioflow.bio_db_parsers.uniprotParser.UniProtParser method)
R
reduce_and_deduplicate_sample() (in module bioflow.algorithms_bank.flow_calculation_methods)
reduce_ops() (in module bioflow.algorithms_bank.flow_calculation_methods)
render_2d_matrix() (in module bioflow.utils.general_utils.useful_wrappers)
S
start_block() (bioflow.bio_db_parsers.geneOntologyParser.GOTermsParser method)
T
time_it_wrapper() (in module bioflow.utils.general_utils.useful_wrappers)
translate_identifiers() (in module bioflow.pre_processing.remap_IDs)
U
UniProtParser (class in bioflow.bio_db_parsers.uniprotParser)
url_to_local() (in module bioflow.utils.general_utils.internet_io)
url_to_local_p_gz() (in module bioflow.utils.general_utils.internet_io)
url_to_local_p_zip() (in module bioflow.utils.general_utils.internet_io)
url_to_local_path() (in module bioflow.utils.general_utils.internet_io)
W
wipe_dir() (in module bioflow.utils.general_utils.high_level_os_io)
(in module bioflow.utils.log_behavior)
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