Index

A

add_to_cart() (refseq_scraper.RefSeqScraper method)

all_pairs_rbh() (clusterizer.Clusterizer static method)

B

best_hits_from_blast() (blast_hitter.BlastHitter static method) bidir_best_hits() (blast_hitter.BlastHitter static method) blast_hitter module

blast_them() (blast_hitter.BlastHitter method) BlastHitter (class in blast_hitter)

C

cart (refseq_scraper.RefSeqScraper attribute) cluster_from_proteome() (clusterizer.Clusterizer static method) cluster_them() (clusterizer.Clusterizer method) clustering() (clusterizer.Clusterizer static method) clusterizer module

Clusterizer (class in clusterizer) clusters_to_txt() (clusterizer.Clusterizer static method) corr_species_cluster (clusterizer.Clusterizer attribute) createMenuBar() (interface.window method)

D

data (refseq_scraper.RefSeqScraper attribute) distributions_of_evalues() (interface.window method)

download_genome() (refseq_scraper.RefSeqScraper method) Download_proteome() (interface.window method) draw_tree() (clusterizer.Clusterizer method)

E

evalue_dist() (blast_hitter.BlastHitter static method)

F

first_blastp (blast_hitter.BlastHitter attribute)

from_list() (blast_hitter.BlastHitter class method)

G

genomes_dir (blast_hitter.BlastHitter attribute)

getRbh() (blast_hitter.BlastHitter method)

I

interface module

M

max_one_species_per_cluster() (clusterizer.Clusterizer static method) mine_ftps() (refseq_scraper.RefSeqScraper method) mine_species() (refseq_scraper.RefSeqScraper method) module blast_hitter clusterizer interface refseq_scraper

muscle() (clusterizer.Clusterizer static method)

O

one_align_to_rule_them_all() (clusterizer.Clusterizer method)

P

pair_rbh() (clusterizer.Clusterizer static method) parse_fasta() (blast_hitter.BlastHitter static method)

proteomes (clusterizer.Clusterizer attribute) proteomes_in_disk() (interface.window method)

Q

query_name (blast_hitter.BlastHitter attribute)

query_path (blast_hitter.BlastHitter attribute)

R

rbh (blast_hitter.BlastHitter attribute) rbh_files (clusterizer.Clusterizer attribute) rbh_them() (blast_hitter.BlastHitter method) refseq_scraper module

RefSeqScraper (class in refseq_scraper) reset() (interface.window method) results_dir (blast_hitter.BlastHitter attribute)

S

Search_Download_proteome() (interface.window method) second_blastp (blast_hitter.BlastHitter attribute) Select_Download_proteome() (interface.window method) seqkit_stat() (blast_hitter.BlastHitter static method) species_cluster() (clusterizer.Clusterizer static method)

stats() (interface.window method) subject_name (blast_hitter.BlastHitter attribute) subject_path (blast_hitter.BlastHitter attribute) super_alignement (clusterizer.Clusterizer attribute) super_alignement() (clusterizer.Clusterizer static method)

T

tree_generator() (clusterizer.Clusterizer static method)

U

universal_blast() (blast_hitter.BlastHitter static method)

V

validate_blast_selection() (interface.window method)

validate_prot_select() (interface.window method) validate_proteome_selection() (interface.window method)

W

window (class in interface)

working_cluster (clusterizer.Clusterizer attribute)