padmet-utils
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Scripts: Connection
Scripts: Exploration
Scripts: Management
padmet-utils
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A
add_collapsible() (in module padmet_utils.connection.wikiGenerator)
add_delete_rxn() (in module padmet_utils.management.manual_curation)
add_ga() (in module padmet_utils.connection.sbmlGenerator)
add_kegg_pwy() (in module padmet_utils.connection.biggAPI_to_padmet)
(in module padmet_utils.connection.modelSeed_to_padmet)
add_property() (in module padmet_utils.connection.wikiGenerator)
asp_synt() (in module padmet_utils.connection.padmet_to_asp)
B
biggAPI_to_padmet() (in module padmet_utils.connection.biggAPI_to_padmet)
C
check() (in module padmet_utils.connection.sbmlGenerator)
check_sbml_db() (in module padmet_utils.exploration.convert_sbml_db)
classes_parser() (in module padmet_utils.connection.pgdb_to_padmet)
compare_padmet() (in module padmet_utils.exploration.compare_padmet)
compare_sbml_padmet() (in module padmet_utils.exploration.compare_sbml_padmet)
compound_to_sbml() (in module padmet_utils.connection.sbmlGenerator)
compounds_parser() (in module padmet_utils.connection.pgdb_to_padmet)
copy_io_files() (in module padmet_utils.connection.wikiGenerator)
create_annotation() (in module padmet_utils.connection.sbmlGenerator)
create_biological_page() (in module padmet_utils.connection.wikiGenerator)
create_log_page() (in module padmet_utils.connection.wikiGenerator)
create_main() (in module padmet_utils.connection.wikiGenerator)
create_navigation_page() (in module padmet_utils.connection.wikiGenerator)
create_note() (in module padmet_utils.connection.sbmlGenerator)
create_venn() (in module padmet_utils.connection.wikiGenerator)
createDirectory() (in module padmet_utils.connection.wikiGenerator)
D
dict_data_to_sbml() (in module padmet_utils.connection.extract_orthofinder)
dict_pwys_to_file() (in module padmet_utils.exploration.get_pwy_from_rxn)
,
[1]
draw_ellipse() (in module padmet_utils.connection.wikiGenerator)
draw_text() (in module padmet_utils.connection.wikiGenerator)
E
enhance_db() (in module padmet_utils.connection.pgdb_to_padmet)
enhanced_meneco_output() (in module padmet_utils.connection.enhanced_meneco_output)
entity_xref_file() (in module padmet_utils.connection.padmet_to_tsv)
enzrxns_parser() (in module padmet_utils.connection.pgdb_to_padmet)
extract_entity_xref() (in module padmet_utils.connection.padmet_to_tsv)
extract_nodes() (in module padmet_utils.connection.padmet_to_tsv)
extract_padmet_data() (in module padmet_utils.connection.wikiGenerator)
extract_pwy() (in module padmet_utils.connection.padmet_to_tsv)
extract_pwys() (in module padmet_utils.exploration.get_pwy_from_rxn)
,
[1]
extract_rxn_cpd() (in module padmet_utils.connection.padmet_to_tsv)
extract_rxn_gene() (in module padmet_utils.connection.padmet_to_tsv)
extract_rxn_pwy() (in module padmet_utils.connection.padmet_to_tsv)
extract_rxn_rec() (in module padmet_utils.connection.padmet_to_tsv)
extract_rxn_with_gene_assoc() (in module padmet_utils.connection.extract_rxn_with_gene_assoc)
F
from_pgdb_to_padmet() (in module padmet_utils.connection.pgdb_to_padmet)
from_sbml_to_padmet() (in module padmet_utils.connection.sbml_to_padmet)
G
gene_to_targets() (in module padmet_utils.connection.gene_to_targets)
genes_parser() (in module padmet_utils.connection.pgdb_to_padmet)
get_cmd_label() (in module padmet_utils.connection.wikiGenerator)
get_from_mnx() (in module padmet_utils.exploration.convert_sbml_db)
get_labels() (in module padmet_utils.connection.wikiGenerator)
get_sbml_files() (in module padmet_utils.connection.extract_orthofinder)
I
intern_mapping() (in module padmet_utils.exploration.convert_sbml_db)
M
main() (in module padmet_utils.connection.biggAPI_to_padmet)
(in module padmet_utils.connection.enhanced_meneco_output)
(in module padmet_utils.connection.extract_orthofinder)
(in module padmet_utils.connection.extract_rxn_with_gene_assoc)
(in module padmet_utils.connection.gene_to_targets)
(in module padmet_utils.connection.modelSeed_to_padmet)
(in module padmet_utils.connection.padmet_to_asp)
(in module padmet_utils.connection.padmet_to_matrix)
(in module padmet_utils.connection.padmet_to_padmet)
(in module padmet_utils.connection.padmet_to_tsv)
(in module padmet_utils.connection.pgdb_to_padmet)
(in module padmet_utils.connection.sbmlGenerator)
(in module padmet_utils.connection.sbml_to_padmet)
(in module padmet_utils.connection.wikiGenerator)
(in module padmet_utils.exploration.compare_padmet)
(in module padmet_utils.exploration.compare_sbml_padmet)
(in module padmet_utils.exploration.convert_sbml_db)
(in module padmet_utils.exploration.get_pwy_from_rxn)
,
[1]
(in module padmet_utils.exploration.report_network)
(in module padmet_utils.management.manual_curation)
(in module padmet_utils.management.padmet_medium)
manage_medium() (in module padmet_utils.management.padmet_medium)
map_gene_id() (in module padmet_utils.connection.pgdb_to_padmet)
map_sbml() (in module padmet_utils.exploration.convert_sbml_db)
mnx_reader() (in module padmet_utils.exploration.convert_sbml_db)
O
orthogroups_to_sbml() (in module padmet_utils.connection.extract_orthofinder)
orthologue_to_sbml() (in module padmet_utils.connection.extract_orthofinder)
P
padmet_to_asp() (in module padmet_utils.connection.padmet_to_asp)
padmet_to_matrix() (in module padmet_utils.connection.padmet_to_matrix)
padmet_to_padmet() (in module padmet_utils.connection.padmet_to_padmet)
padmet_to_sbml() (in module padmet_utils.connection.sbmlGenerator)
padmet_utils.connection.biggAPI_to_padmet (module)
padmet_utils.connection.enhanced_meneco_output (module)
padmet_utils.connection.extract_orthofinder (module)
padmet_utils.connection.extract_rxn_with_gene_assoc (module)
padmet_utils.connection.gene_to_targets (module)
padmet_utils.connection.modelSeed_to_padmet (module)
padmet_utils.connection.padmet_to_asp (module)
padmet_utils.connection.padmet_to_matrix (module)
padmet_utils.connection.padmet_to_padmet (module)
padmet_utils.connection.padmet_to_tsv (module)
padmet_utils.connection.pgdb_to_padmet (module)
padmet_utils.connection.sbml_to_padmet (module)
padmet_utils.connection.sbmlGenerator (module)
padmet_utils.connection.wikiGenerator (module)
padmet_utils.exploration.compare_padmet (module)
padmet_utils.exploration.compare_sbml_padmet (module)
padmet_utils.exploration.convert_sbml_db (module)
padmet_utils.exploration.get_pwy_from_rxn (module)
,
[1]
padmet_utils.exploration.report_network (module)
padmet_utils.management.manual_curation (module)
padmet_utils.management.padmet_compart (module)
padmet_utils.management.padmet_medium (module)
parse_mnx_chem_prop() (in module padmet_utils.connection.sbmlGenerator)
parse_mnx_chem_xref() (in module padmet_utils.connection.sbmlGenerator)
pathways_parser() (in module padmet_utils.connection.pgdb_to_padmet)
proteins_parser() (in module padmet_utils.connection.pgdb_to_padmet)
pwy_rate() (in module padmet_utils.connection.padmet_to_tsv)
R
reaction_to_sbml() (in module padmet_utils.connection.sbmlGenerator)
reactions_parser() (in module padmet_utils.connection.pgdb_to_padmet)
reduce_padmet_data() (in module padmet_utils.connection.wikiGenerator)
remove_compart() (in module padmet_utils.management.padmet_compart)
remplace_compart() (in module padmet_utils.management.padmet_compart)
rxn_cpd_file() (in module padmet_utils.connection.padmet_to_tsv)
rxn_creator() (in module padmet_utils.management.manual_curation)
rxn_gene_file() (in module padmet_utils.connection.padmet_to_tsv)
rxn_pwy_file() (in module padmet_utils.connection.padmet_to_tsv)
rxn_rec_file() (in module padmet_utils.connection.padmet_to_tsv)
S
sniff_datafile() (in module padmet_utils.management.manual_curation)
T
template_add_delete() (in module padmet_utils.management.manual_curation)
template_new_rxn() (in module padmet_utils.management.manual_curation)
U
update_basic_attrib() (in module padmet_utils.connection.wikiGenerator)
V
venn4() (in module padmet_utils.connection.wikiGenerator)
W
wikiGenerator() (in module padmet_utils.connection.wikiGenerator)
X
xrefLink() (in module padmet_utils.connection.wikiGenerator)
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