LICENSE
MANIFEST.in
README.md
setup.py
BioSAK/BLCA_op_parser.py
BioSAK/BioSAK_config.py
BioSAK/COG2020.py
BioSAK/COG2024.py
BioSAK/COG_boxplot_last1row.R
BioSAK/COG_boxplot_last2row.R
BioSAK/CheckM.py
BioSAK/Combine_KEGG_COG.py
BioSAK/Combine_KEGG_arCOG.py
BioSAK/DendroDF.py
BioSAK/DnaFeaturesViewer.py
BioSAK/FastaSplitler_by_num.py
BioSAK/FastaSplitler_by_size.py
BioSAK/FasterqDump.py
BioSAK/GTDB_for_BLCA.py
BioSAK/GenBank.py
BioSAK/Gene2Ctg.py
BioSAK/KEGG.py
BioSAK/KEGG_boxplot_last1row.R
BioSAK/KEGG_get_eukaryotic_kos.py
BioSAK/KeepRemovingTmp.py
BioSAK/MeanMappingDepth.py
BioSAK/MetaCHIP_phylo.hmm
BioSAK/MetaCyc_reactions_with_ec.txt
BioSAK/NetEnzymes.py
BioSAK/Prodigal.py
BioSAK/Reads_simulator.py
BioSAK/RunGraphMB.py
BioSAK/SILVA_for_BLCA.py
BioSAK/SankeyTaxon.py
BioSAK/SubsampleLongReads.py
BioSAK/Tax4Fun2IndOTU.py
BioSAK/UNITE_for_BLCA.py
BioSAK/Usearch16S.py
BioSAK/VERSION
BioSAK/VisBlastOp.py
BioSAK/VisGeneFlk.py
BioSAK/__init__.py
BioSAK/abd.backup.py
BioSAK/abd.py
BioSAK/abd_16s_amplicon.py
BioSAK/abd_16s_metagenome.py
BioSAK/abd_mask.py
BioSAK/abd_rename_and_combine.py
BioSAK/abund.py
BioSAK/add_desc.py
BioSAK/arCOG.py
BioSAK/bam2reads.py
BioSAK/blast.py
BioSAK/blca.py
BioSAK/blca_generate_abundance_table.py
BioSAK/blca_main.py
BioSAK/blca_subset_db_acc.py
BioSAK/blca_subset_db_gg.py
BioSAK/boxplot.py
BioSAK/boxplot_last1row.R
BioSAK/boxplot_matrix_COG.py
BioSAK/boxplot_matrix_COG_backup.py
BioSAK/boxplot_matrix_KEGG.py
BioSAK/boxplot_matrix_dbCAN.py
BioSAK/cat_fa.py
BioSAK/cdb.py
BioSAK/cdb_to_itol_piechart.py
BioSAK/cdd2cog.pl
BioSAK/checkm_marker.py
BioSAK/combine_fun_stats.py
BioSAK/combine_low_abd_otu.py
BioSAK/compare_sets.py
BioSAK/count_num.py
BioSAK/cross_link_seqs.py
BioSAK/dbCAN.py
BioSAK/download_GenBank_genome_subset_prokaryotes_csv.py
BioSAK/enrich.py
BioSAK/exe_cmds.py
BioSAK/ezaai2mat.py
BioSAK/fa2id.py
BioSAK/fastaai.py
BioSAK/format_converter.py
BioSAK/fq2fa.py
BioSAK/gapseq.py
BioSAK/gbk2faa.py
BioSAK/gbk2ffn.py
BioSAK/gbk2fna.py
BioSAK/gbk2gff.py
BioSAK/gbk_to_ffn_faa.py
BioSAK/gc.py
BioSAK/get_EC_from_ko_stats_D.py
BioSAK/get_GTDB_taxon_gnm.py
BioSAK/get_MAG_reads_long.py
BioSAK/get_Pfam_hmms.py
BioSAK/get_TopHits_taxonomy.py
BioSAK/get_aa_composition.py
BioSAK/get_abd1_mask.py
BioSAK/get_abd3_stats.py
BioSAK/get_bin_abundance copy.py
BioSAK/get_data_matrix.py
BioSAK/get_eu_otu.py
BioSAK/get_gene_depth.py
BioSAK/get_genome_GTDB.py
BioSAK/get_genome_NCBI.py
BioSAK/get_genome_NCBI_v1.py
BioSAK/get_genome_NCBI_v2.py
BioSAK/get_gnm_size.py
BioSAK/get_ko_gene_seqs.py
BioSAK/get_krona_plot.py
BioSAK/get_reads_from_sam.py
BioSAK/get_reads_id_in_sam.py
BioSAK/get_single_page_web.py
BioSAK/get_top_hit.py
BioSAK/get_total_length.py
BioSAK/gff2chrom.py
BioSAK/global_functions.py
BioSAK/hpc4.py
BioSAK/js_cmds.py
BioSAK/js_hpc3.py
BioSAK/keep_best_hit.py
BioSAK/ko00001.keg
BioSAK/koala.py
BioSAK/link_16S_MAG.py
BioSAK/link_16s.py
BioSAK/magabund.py
BioSAK/magabund2.py
BioSAK/manipulator_fasta.py
BioSAK/manipulator_msa.py
BioSAK/manipulator_newick.py
BioSAK/manipulator_sam.py
BioSAK/mann_whitney_u.py
BioSAK/mean_MAG_cov.py
BioSAK/merge_df.py
BioSAK/merge_seq.py
BioSAK/metaAssembly.py
BioSAK/metaBiosample.py
BioSAK/metabat2concoct.py
BioSAK/metabat2maxbin.py
BioSAK/metadata.py
BioSAK/mmseqs.py
BioSAK/msa_to_distance_matrix.py
BioSAK/ncbi_dataset.py
BioSAK/odp.py
BioSAK/parse_MetaCyc_RxnDB.py
BioSAK/parse_mmseqs_tsv.py
BioSAK/plot_mag.py
BioSAK/plot_sam_depth.py
BioSAK/plot_tree.R
BioSAK/prefix_file.py
BioSAK/prefix_seq_by_file_name.py
BioSAK/prokka.py
BioSAK/reads2bam.py
BioSAK/rename_df_row.py
BioSAK/rename_reads_for_Reago.py
BioSAK/rename_seq.py
BioSAK/ribbon.py
BioSAK/rm_low_abd_otu.py
BioSAK/rm_low_depth_sample.py
BioSAK/sam2bam.py
BioSAK/sampling_GTDB_gnms.py
BioSAK/sankey.R
BioSAK/sankey.py
BioSAK/select_seq.py
BioSAK/sep_reads_by_barcode.py
BioSAK/slice_seq.py
BioSAK/split_fasta.py
BioSAK/split_folder.py
BioSAK/split_sam.py
BioSAK/sra.py
BioSAK/sra2biosample.py
BioSAK/srun.py
BioSAK/statsTaxa.py
BioSAK/stats_arcog.py
BioSAK/stats_blast_hit.py
BioSAK/stats_cog2024.py
BioSAK/stats_ko.py
BioSAK/submitHPC.py
BioSAK/subset_GTDB_meta.py
BioSAK/subset_df.py
BioSAK/subset_gene_by_gnm.py
BioSAK/subset_tree.py
BioSAK/taxdump.py
BioSAK/tmp_1.py
BioSAK/tmp_2.py
BioSAK/tmp_3.py
BioSAK/tmp_4.py
BioSAK/tmp_5.py
BioSAK/tmp_6.py
BioSAK/tmp_7.py
BioSAK/top_16S_hits.py
BioSAK/top_hits_in_a_group.py
BioSAK/transpose.py
BioSAK/trim.py
BioSAK/usearch_uc.py
BioSAK/vis_color_scheme.py
BioSAK/wilcox.py
bin/BioSAK
biosak.egg-info/PKG-INFO
biosak.egg-info/SOURCES.txt
biosak.egg-info/dependency_links.txt
biosak.egg-info/requires.txt
biosak.egg-info/top_level.txt