Index

A

add_coding_density() (binette.bin_manager.Bin method) add_length() (binette.bin_manager.Bin method) add_model() (binette.bin_manager.Bin method)

add_N50() (binette.bin_manager.Bin method) add_quality() (binette.bin_manager.Bin method) apply_contig_index() (in module binette.contig_manager)

B

Bin (class in binette.bin_manager) binette.bin_manager module binette.cds module

binette.contig_manager module binette.io_manager module build_contig_index() (in module binette.bin_manager)

C

check_contig_consistency() (in module binette.io_manager) check_resume_file() (in module binette.io_manager) checkm2_model (binette.bin_manager.Bin property) CHECKM2_MODELS (binette.bin_manager.Bin attribute)

contig_difference() (binette.bin_manager.Bin method) contig_intersection() (binette.bin_manager.Bin method) contig_union() (binette.bin_manager.Bin method) contigs_key (binette.bin_manager.Bin property) create_intermediate_bins() (in module binette.bin_manager)

F

filter_faa_file() (in module binette.cds)

from_bins_to_bin_graph() (in module binette.bin_manager)

G

get_aa_composition() (in module binette.cds) get_all_possible_combinations() (in module binette.bin_manager) get_bins_from_contig2bin_table() (in module binette.bin_manager) get_bins_from_directory() (in module binette.bin_manager) get_contig_cds_metadata() (in module binette.cds)

get_contig_cds_metadata_flat() (in module binette.cds) get_contig_coding_len() (in module binette.cds) get_contig_from_cds_name() (in module binette.cds) get_contigs_in_bin_sets() (in module binette.bin_manager) get_paths_common_prefix_suffix() (in module binette.io_manager)

I

infer_bin_set_names_from_input_paths() (in module binette.io_manager)

is_high_quality() (binette.bin_manager.Bin method) is_nucleic_acid() (in module binette.cds)

M

make_bins_from_bins_info() (in module binette.bin_manager) make_contig_index() (in module binette.contig_manager) module binette.bin_manager binette.cds binette.contig_manager binette.io_manager

O

overlaps_with() (binette.bin_manager.Bin method)

P

parse_bin_directories() (in module binette.bin_manager) parse_contig2bin_tables() (in module binette.bin_manager) parse_faa_file() (in module binette.cds)

parse_fasta_file() (in module binette.contig_manager) predict() (in module binette.cds) predict_genes() (in module binette.cds)

R

remove_bins_from_index() (in module binette.bin_manager)

S

select_best_bins() (in module binette.bin_manager)

sum_contig_lengths() (in module binette.bin_manager)

W

write_bin_info() (in module binette.io_manager) write_bins_fasta() (in module binette.io_manager)

write_contig2bin_table() (in module binette.io_manager) write_faa() (in module binette.cds) write_original_bin_metrics() (in module binette.io_manager)