LICENSE.nextstrain-cli
LICENSE.txt
MANIFEST.in
README.md
setup.py
augur/__init__.py
augur/__main__.py
augur/__version__.py
augur/align.py
augur/ancestral.py
augur/argparse_.py
augur/clades.py
augur/distance.py
augur/errors.py
augur/export.py
augur/export_v1.py
augur/export_v2.py
augur/filenames.py
augur/frequencies.py
augur/frequency_estimators.py
augur/index.py
augur/lbi.py
augur/mask.py
augur/parse.py
augur/reconstruct_sequences.py
augur/refine.py
augur/sequence_traits.py
augur/titer_model.py
augur/titers.py
augur/traits.py
augur/translate.py
augur/tree.py
augur/types.py
augur/utils.py
augur/validate.py
augur/validate_export.py
augur/version.py
augur/curate/__init__.py
augur/curate/format_dates.py
augur/curate/format_dates_directives.py
augur/curate/normalize_strings.py
augur/curate/passthru.py
augur/curate/titlecase.py
augur/data/__init__.py
augur/data/colors.tsv
augur/data/lat_longs.tsv
augur/data/schema-annotations.json
augur/data/schema-auspice-config-v2.json
augur/data/schema-export-root-sequence.json
augur/data/schema-export-v1-meta.json
augur/data/schema-export-v1-tree.json
augur/data/schema-export-v2.json
augur/data/schema-frequencies.json
augur/data/schema-measurements-collection-config.json
augur/data/schema-measurements.json
augur/data/schema-tip-frequencies.json
augur/dates/__init__.py
augur/dates/ambiguous_date.py
augur/dates/errors.py
augur/filter/__init__.py
augur/filter/_run.py
augur/filter/constants.py
augur/filter/include_exclude_rules.py
augur/filter/io.py
augur/filter/subsample.py
augur/filter/validate_arguments.py
augur/import_/__init__.py
augur/import_/beast.py
augur/io/__init__.py
augur/io/file.py
augur/io/json.py
augur/io/metadata.py
augur/io/print.py
augur/io/sequences.py
augur/io/shell_command_runner.py
augur/io/strains.py
augur/io/vcf.py
augur/measurements/__init__.py
augur/measurements/concat.py
augur/measurements/export.py
augur/util_support/__init__.py
augur/util_support/color_parser.py
augur/util_support/color_parser_line.py
augur/util_support/node_data.py
augur/util_support/node_data_file.py
augur/util_support/node_data_reader.py
nextstrain_augur.egg-info/PKG-INFO
nextstrain_augur.egg-info/SOURCES.txt
nextstrain_augur.egg-info/dependency_links.txt
nextstrain_augur.egg-info/entry_points.txt
nextstrain_augur.egg-info/requires.txt
nextstrain_augur.egg-info/top_level.txt
tests/test_align.py
tests/test_ancestral.py
tests/test_clades.py
tests/test_flake8.py
tests/test_frequencies.py
tests/test_mask.py
tests/test_mypy.py
tests/test_parse.py
tests/test_schemas.py
tests/test_titer_models.py
tests/test_translate.py
tests/test_utils.py
tests/test_validate.py
tests/test_validate_export.py