LICENSE
MANIFEST.in
README.rst
setup.py
bin/add_gff3_locus_tags.py
bin/add_polypeptide_to_gff3_gene_models.py
bin/append_to_column_9_value.py
bin/append_to_fasta_header.py
bin/append_to_fastq_read_header.py
bin/calculate_query_coverage_by_blast.py
bin/check_for_embedded_fasta_headers.py
bin/check_gff_for_internal_stops.py
bin/compare_gene_structures.py
bin/convert_aat_btab_to_gff3.py
bin/convert_augustus_to_gff3.py
bin/convert_blast_btab_to_gff3.py
bin/convert_cegma_gff_to_gff3.py
bin/convert_cufflinks_gtf_to_gff3.py
bin/convert_fasta_contigs_to_gff3.py
bin/convert_fastq_to_fasta.py
bin/convert_genbank_to_gff3.py
bin/convert_gff3_to_gbk.py
bin/convert_gff3_to_gene_association_format.py
bin/convert_gff3_to_ncbi_tbl.py
bin/convert_glimmerHMM_gff_to_gff3.py
bin/convert_metagenemark_gff_to_gff3.py
bin/convert_pasa_gff_to_models.py
bin/convert_prodigal_to_gff3.py
bin/convert_scipio_gff_to_gff3.py
bin/correct_gff3_CDS_phase_column.py
bin/create_rsem_html_table.py
bin/create_taxonomic_profile_from_blast.py
bin/create_taxonomy_db.py
bin/detect_inverted_repeats.py
bin/eggnog_to_sqlite3.py
bin/extend_genes_to_stops.py
bin/extract_fasta_regions.py
bin/fasta_base_content.py
bin/fasta_size_distribution_plot.py
bin/fastq_simple_stats.py
bin/filter_fasta_by_header_regex.py
bin/filter_fasta_by_type.py
bin/filter_fastq_by_N_content.py
bin/filter_gff3_by_id_list.py
bin/filter_uniref_by_repid.py
bin/filter_uniref_by_taxonomy.py
bin/get_mpilup_from_id_list.py
bin/hmmlib_to_sqlite3.py
bin/interleave_fasta.py
bin/interleave_fastq.py
bin/list_biocode.py
bin/make_cufflinks_ids_unique.py
bin/make_go_index.py
bin/make_go_slim.py
bin/make_go_slim_index.py
bin/mark_partial_genes.py
bin/merge_bam_files.py
bin/merge_fasta_files_and_uniquify_ids.py
bin/merge_masked_fasta_files.py
bin/merge_predicted_gff3.py
bin/prepend_to_fasta_header.py
bin/randomly_subsample_fastq.py
bin/reformat_fasta_residue_lengths.py
bin/remove_duplicate_features.py
bin/remove_duplicate_sequences.py
bin/remove_masked_gene_models.py
bin/remove_orphaned_features.py
bin/reorient_sequences_by_id.py
bin/replace_gff_type_column_value.py
bin/replace_homopolymeric_repeats_with_Ns.py
bin/report_basic_gff_model_agreement.py
bin/report_coverage_gaps.py
bin/report_gff3_statistics.py
bin/report_gff_intron_and_intergenic_stats.py
bin/report_or_replace_nonstandard_residues.py
bin/reverse_misordered_cds_coords.py
bin/select_training_and_evaluation_transcripts.py
bin/set_source_column.py
bin/split_fasta_into_even_files.py
bin/split_interleaved_sequence_file.py
bin/split_isoforms_into_individual_genes.py
bin/split_molecules_on_gaps.py
bin/subsample_fasta.py
bin/tigrfam_info_to_sqlite3.py
bin/uniprot_sprot_to_sqlite3.py
bin/uniref_to_sqlite3.py
bin/update_selected_column9_values.py
bin/validate_fasta.py
bin/validate_feature_boundaries_on_molecules.py
bin/write_fasta_from_gff.py
biocode/__init__.py
biocode/annotation.py
biocode/genbank.py
biocode/gff.py
biocode/tbl.py
biocode/things.py
biocode/utils.py
biocode.egg-info/PKG-INFO
biocode.egg-info/SOURCES.txt
biocode.egg-info/dependency_links.txt
biocode.egg-info/not-zip-safe
biocode.egg-info/requires.txt
biocode.egg-info/top_level.txt
biocode/data/HMPslim.v2.1.obo
biocode/data/__init__.py
biocode/data/biocode_script_index.json
biocode/data/genbank_flat_file_header.template
biocode/data/go.obo
biocode/data/go.pickle
biocode/data/rsem_html_table.template