Index

B | C | D | E | F | G | H | I | L | M | N | P | R | S | U | V | W

B

BanzaiDB (module)
BanzaiDB.banzaidb (module)
BanzaiDB.config (module)
BanzaiDB.converters (module)
BanzaiDB.core (module)
BanzaiDB.database (module)
BanzaiDB.errors (module)
BanzaiDB.fabfile (module)
BanzaiDB.fabfile.variants (module)
BanzaiDB.fetch (module)
BanzaiDB.imaging (module)
BanzaiDB.misc (module)
BanzaiDB.parsers (module)
BanzaiDBConfig (class in BanzaiDB.config)

C

convert_from_csv_to_JSON() (in module BanzaiDB.converters)
convert_from_JSON_to_CSV() (in module BanzaiDB.converters)
CouldNotParseJSONError
create_feature() (in module BanzaiDB.misc)
create_parser() (in module BanzaiDB.banzaidb)

D

db_query() (in module BanzaiDB.banzaidb)
dump_items() (BanzaiDB.config.BanzaiDBConfig method)

E

extract_positions() (in module BanzaiDB.fabfile.variants)

F

fetch_given_strain_position() (in module BanzaiDB.fabfile.variants)
filter_counts() (in module BanzaiDB.fabfile.variants)

G

gen_colors() (in module BanzaiDB.imaging)
get_genbank() (in module BanzaiDB.fetch)
get_num_strains() (in module BanzaiDB.fabfile.variants)
get_required_strains() (in module BanzaiDB.fabfile.variants)
get_variants_by_keyword (in module BanzaiDB.fabfile.variants)
get_variants_in_range (in module BanzaiDB.fabfile.variants)

H

hsv_to_rgb() (in module BanzaiDB.imaging)

I

init_database_with_default_tables() (in module BanzaiDB.banzaidb)
InvalidDBName

L

list_membership() (in module BanzaiDB.fabfile.variants)

M

main() (in module BanzaiDB.banzaidb)
make_connection() (in module BanzaiDB.database)

N

nesoni_report_to_JSON() (in module BanzaiDB.core)
NestedJSONError

P

parse_deletion() (in module BanzaiDB.parsers)
parse_deletion_misc() (in module BanzaiDB.parsers)
parse_evidence() (in module BanzaiDB.parsers)
parse_insertion() (in module BanzaiDB.parsers)
parse_insertion_misc() (in module BanzaiDB.parsers)
parse_substitution() (in module BanzaiDB.parsers)
parse_substitution_misc() (in module BanzaiDB.parsers)
plot_SNPs() (in module BanzaiDB.imaging)
plot_variant_positions (in module BanzaiDB.fabfile.variants)
populate_annotation() (in module BanzaiDB.banzaidb)
populate_assembly() (in module BanzaiDB.banzaidb)
populate_database_with_data() (in module BanzaiDB.banzaidb)
populate_mapping() (in module BanzaiDB.banzaidb)
populate_ordering() (in module BanzaiDB.banzaidb)
populate_qc() (in module BanzaiDB.banzaidb)
position_counter() (in module BanzaiDB.fabfile.variants)

R

read_config() (BanzaiDB.config.BanzaiDBConfig method)
reference_genome_features_to_JSON() (in module BanzaiDB.core)

S

strain_variant_stats (in module BanzaiDB.fabfile.variants)
strip_non_CDS() (in module BanzaiDB.parsers)

U

updateDB() (in module BanzaiDB.banzaidb)

V

variant_hotspots (in module BanzaiDB.fabfile.variants)
variant_positions_within_atleast (in module BanzaiDB.fabfile.variants)

W

what_differentiates_strains (in module BanzaiDB.fabfile.variants)