LICENSE
MANIFEST.in
README.md
requirements.txt
setup.py
tests/__init__.py
tests/test_annotate_extra.py
tests/test_classy.py
tests/test_colours.py
tests/test_commands.py
tests/test_entish.py
tests/test_entrez_utils.py
tests/test_fasta.py
tests/test_file_parsers.py
tests/test_hmmer_parser.py
tests/test_placement_trainer.py
tests/test_refpkg.py
tests/test_taxonomic_hierarchy.py
tests/test_training_utils.py
tests/test_utilities.py
tests/testing_utils.py
treesapp/HMMER_domainTblParser.py
treesapp/MCC_calculator.py
treesapp/__init__.py
treesapp/__main__.py
treesapp/annotate_extra.py
treesapp/assign.py
treesapp/clade_exclusion_evaluator.py
treesapp/classifier_trainer.py
treesapp/classy.py
treesapp/commands.py
treesapp/create_refpkg.py
treesapp/entish.py
treesapp/entrez_utils.py
treesapp/external_command_interface.py
treesapp/extract_tree_clade.py
treesapp/fasta.py
treesapp/file_parsers.py
treesapp/jplace_utils.py
treesapp/lca_calculations.py
treesapp/phylo_dist.py
treesapp/phylo_seq.py
treesapp/phylogeny_painting.py
treesapp/placement_trainer.py
treesapp/refpkg.py
treesapp/taxonomic_hierarchy.py
treesapp/training_utils.py
treesapp/treesapp_args.py
treesapp/update_refpkg.py
treesapp/utilities.py
treesapp/wrapper.py
treesapp.egg-info/PKG-INFO
treesapp.egg-info/SOURCES.txt
treesapp.egg-info/dependency_links.txt
treesapp.egg-info/entry_points.txt
treesapp.egg-info/requires.txt
treesapp.egg-info/top_level.txt
treesapp/data/DsrAB_build.pkl
treesapp/data/McrA_build.pkl
treesapp/data/McrB_build.pkl
treesapp/data/McrG_build.pkl
treesapp/data/NapA_build.pkl
treesapp/data/NifD_build.pkl
treesapp/data/NirK_build.pkl
treesapp/data/NirS_build.pkl
treesapp/data/NorB_build.pkl
treesapp/data/NxrA_build.pkl
treesapp/data/NxrB_build.pkl
treesapp/data/PF00380a_build.pkl
treesapp/data/PF00380b_build.pkl
treesapp/data/PF00410a_build.pkl
treesapp/data/PF00410b_build.pkl
treesapp/data/PF00687a_build.pkl
treesapp/data/PF00687b_build.pkl
treesapp/data/PF00750a_build.pkl
treesapp/data/PF00750b_build.pkl
treesapp/data/PF00900_build.pkl
treesapp/data/PF01015_build.pkl
treesapp/data/PF01092_build.pkl
treesapp/data/PF01157_build.pkl
treesapp/data/PF01200_build.pkl
treesapp/data/PF01280_build.pkl
treesapp/data/PF01409a_build.pkl
treesapp/data/PF01409b_build.pkl
treesapp/data/PF01655_build.pkl
treesapp/data/PF01866_build.pkl
treesapp/data/PilA_build.pkl
treesapp/data/XmoA_build.pkl
treesapp/data/iTOL_data/DsrAB_Gene.txt
treesapp/data/iTOL_data/DsrAB_colour_strip.txt
treesapp/data/iTOL_data/DsrAB_colours_style.txt
treesapp/data/iTOL_data/GH36_Clusters.txt
treesapp/data/iTOL_data/GH36_Clusters_strip.txt
treesapp/data/iTOL_data/GH36_colour_strip.txt
treesapp/data/iTOL_data/GH36_colours_style.txt
treesapp/data/iTOL_data/HydA_colour_strip.txt
treesapp/data/iTOL_data/HydA_colours_style.txt
treesapp/data/iTOL_data/McrA_Metabolism.txt
treesapp/data/iTOL_data/McrA_colour_strip.txt
treesapp/data/iTOL_data/McrA_colours_style.txt
treesapp/data/iTOL_data/NxrB_Gene.txt
treesapp/data/iTOL_data/XmoA_Function.txt
treesapp/extensions/fasta_reader.cpp
treesapp/extensions/tree_parsermodule.cpp
treesapp/include/fasta_reader.hpp
treesapp/sub_binaries/BMGE.jar