COPYING.txt
ChangeLog.md
MANIFEST.in
README.md
setup.cfg
setup.py
biom/__init__.py
biom/_filter.c
biom/_filter.pyx
biom/_subsample.c
biom/_subsample.pyx
biom/_transform.c
biom/_transform.pyx
biom/err.py
biom/exception.py
biom/parse.py
biom/table.py
biom/util.py
biom/assets/exercise_api.py
biom/assets/exercise_cli.sh
biom/cli/__init__.py
biom/cli/installation_informer.py
biom/cli/metadata_adder.py
biom/cli/table_converter.py
biom/cli/table_head.py
biom/cli/table_ids.py
biom/cli/table_normalizer.py
biom/cli/table_subsetter.py
biom/cli/table_summarizer.py
biom/cli/table_validator.py
biom/cli/uc_processor.py
biom/cli/util.py
biom/tests/__init__.py
biom/tests/long_lines.py
biom/tests/test_err.py
biom/tests/test_parse.py
biom/tests/test_table.py
biom/tests/test_util.py
biom/tests/bench_tables/10000x10000x0.001_bench.biom.gz
biom/tests/bench_tables/10000x10000x0.001_bench_hdf5.biom.gz
biom/tests/bench_tables/10000x10000x0.010_bench.biom.gz
biom/tests/bench_tables/10000x10000x0.010_bench_hdf5.biom.gz
biom/tests/bench_tables/10000x10000x0.100_bench.biom.gz
biom/tests/bench_tables/10000x10000x0.100_bench_hdf5.biom.gz
biom/tests/bench_tables/10000x1000x0.001_bench.biom.gz
biom/tests/bench_tables/10000x1000x0.001_bench_hdf5.biom.gz
biom/tests/bench_tables/10000x1000x0.010_bench.biom.gz
biom/tests/bench_tables/10000x1000x0.010_bench_hdf5.biom.gz
biom/tests/bench_tables/10000x1000x0.100_bench.biom.gz
biom/tests/bench_tables/10000x1000x0.100_bench_hdf5.biom.gz
biom/tests/bench_tables/10000x100x0.001_bench.biom.gz
biom/tests/bench_tables/10000x100x0.001_bench_hdf5.biom.gz
biom/tests/bench_tables/10000x100x0.010_bench.biom.gz
biom/tests/bench_tables/10000x100x0.010_bench_hdf5.biom.gz
biom/tests/bench_tables/10000x100x0.100_bench.biom.gz
biom/tests/bench_tables/10000x100x0.100_bench_hdf5.biom.gz
biom/tests/bench_tables/10000x10x0.001_bench.biom.gz
biom/tests/bench_tables/10000x10x0.001_bench_hdf5.biom.gz
biom/tests/bench_tables/10000x10x0.010_bench.biom.gz
biom/tests/bench_tables/10000x10x0.010_bench_hdf5.biom.gz
biom/tests/bench_tables/10000x10x0.100_bench.biom.gz
biom/tests/bench_tables/10000x10x0.100_bench_hdf5.biom.gz
biom/tests/bench_tables/1000x10000x0.001_bench.biom.gz
biom/tests/bench_tables/1000x10000x0.001_bench_hdf5.biom.gz
biom/tests/bench_tables/1000x10000x0.010_bench.biom.gz
biom/tests/bench_tables/1000x10000x0.010_bench_hdf5.biom.gz
biom/tests/bench_tables/1000x10000x0.100_bench.biom.gz
biom/tests/bench_tables/1000x10000x0.100_bench_hdf5.biom.gz
biom/tests/bench_tables/1000x1000x0.001_bench.biom.gz
biom/tests/bench_tables/1000x1000x0.001_bench_hdf5.biom.gz
biom/tests/bench_tables/1000x1000x0.010_bench.biom.gz
biom/tests/bench_tables/1000x1000x0.010_bench_hdf5.biom.gz
biom/tests/bench_tables/1000x1000x0.100_bench.biom.gz
biom/tests/bench_tables/1000x1000x0.100_bench_hdf5.biom.gz
biom/tests/bench_tables/1000x100x0.001_bench.biom.gz
biom/tests/bench_tables/1000x100x0.001_bench_hdf5.biom.gz
biom/tests/bench_tables/1000x100x0.010_bench.biom.gz
biom/tests/bench_tables/1000x100x0.010_bench_hdf5.biom.gz
biom/tests/bench_tables/1000x100x0.100_bench.biom.gz
biom/tests/bench_tables/1000x100x0.100_bench_hdf5.biom.gz
biom/tests/bench_tables/1000x10x0.001_bench.biom.gz
biom/tests/bench_tables/1000x10x0.001_bench_hdf5.biom.gz
biom/tests/bench_tables/1000x10x0.010_bench.biom.gz
biom/tests/bench_tables/1000x10x0.010_bench_hdf5.biom.gz
biom/tests/bench_tables/1000x10x0.100_bench.biom.gz
biom/tests/bench_tables/1000x10x0.100_bench_hdf5.biom.gz
biom/tests/bench_tables/100x10000x0.001_bench.biom.gz
biom/tests/bench_tables/100x10000x0.001_bench_hdf5.biom.gz
biom/tests/bench_tables/100x10000x0.010_bench.biom.gz
biom/tests/bench_tables/100x10000x0.010_bench_hdf5.biom.gz
biom/tests/bench_tables/100x10000x0.100_bench.biom.gz
biom/tests/bench_tables/100x10000x0.100_bench_hdf5.biom.gz
biom/tests/bench_tables/100x1000x0.001_bench.biom.gz
biom/tests/bench_tables/100x1000x0.001_bench_hdf5.biom.gz
biom/tests/bench_tables/100x1000x0.010_bench.biom.gz
biom/tests/bench_tables/100x1000x0.010_bench_hdf5.biom.gz
biom/tests/bench_tables/100x1000x0.100_bench.biom.gz
biom/tests/bench_tables/100x1000x0.100_bench_hdf5.biom.gz
biom/tests/bench_tables/100x100x0.001_bench.biom.gz
biom/tests/bench_tables/100x100x0.001_bench_hdf5.biom.gz
biom/tests/bench_tables/100x100x0.010_bench.biom.gz
biom/tests/bench_tables/100x100x0.010_bench_hdf5.biom.gz
biom/tests/bench_tables/100x100x0.100_bench.biom.gz
biom/tests/bench_tables/100x100x0.100_bench_hdf5.biom.gz
biom/tests/bench_tables/100x10x0.001_bench.biom.gz
biom/tests/bench_tables/100x10x0.001_bench_hdf5.biom.gz
biom/tests/bench_tables/100x10x0.010_bench.biom.gz
biom/tests/bench_tables/100x10x0.010_bench_hdf5.biom.gz
biom/tests/bench_tables/100x10x0.100_bench.biom.gz
biom/tests/bench_tables/100x10x0.100_bench_hdf5.biom.gz
biom/tests/bench_tables/10x10000x0.001_bench.biom.gz
biom/tests/bench_tables/10x10000x0.001_bench_hdf5.biom.gz
biom/tests/bench_tables/10x10000x0.010_bench.biom.gz
biom/tests/bench_tables/10x10000x0.010_bench_hdf5.biom.gz
biom/tests/bench_tables/10x10000x0.100_bench.biom.gz
biom/tests/bench_tables/10x10000x0.100_bench_hdf5.biom.gz
biom/tests/bench_tables/10x1000x0.001_bench.biom.gz
biom/tests/bench_tables/10x1000x0.001_bench_hdf5.biom.gz
biom/tests/bench_tables/10x1000x0.010_bench.biom.gz
biom/tests/bench_tables/10x1000x0.010_bench_hdf5.biom.gz
biom/tests/bench_tables/10x1000x0.100_bench.biom.gz
biom/tests/bench_tables/10x1000x0.100_bench_hdf5.biom.gz
biom/tests/bench_tables/10x100x0.001_bench.biom.gz
biom/tests/bench_tables/10x100x0.001_bench_hdf5.biom.gz
biom/tests/bench_tables/10x100x0.010_bench.biom.gz
biom/tests/bench_tables/10x100x0.010_bench_hdf5.biom.gz
biom/tests/bench_tables/10x100x0.100_bench.biom.gz
biom/tests/bench_tables/10x100x0.100_bench_hdf5.biom.gz
biom/tests/bench_tables/10x10x0.001_bench.biom.gz
biom/tests/bench_tables/10x10x0.001_bench_hdf5.biom.gz
biom/tests/bench_tables/10x10x0.010_bench.biom.gz
biom/tests/bench_tables/10x10x0.010_bench_hdf5.biom.gz
biom/tests/bench_tables/10x10x0.100_bench.biom.gz
biom/tests/bench_tables/10x10x0.100_bench_hdf5.biom.gz
biom/tests/test_cli/__init__.py
biom/tests/test_cli/test_add_metadata.py
biom/tests/test_cli/test_show_install_info.py
biom/tests/test_cli/test_subset_table.py
biom/tests/test_cli/test_summarize_table.py
biom/tests/test_cli/test_table_converter.py
biom/tests/test_cli/test_table_normalizer.py
biom/tests/test_cli/test_uc_processor.py
biom/tests/test_cli/test_validate_table.py
biom/tests/test_cli/test_data/json_obs_collapsed.biom
biom/tests/test_cli/test_data/json_sample_collapsed.biom
biom/tests/test_cli/test_data/test.biom
biom/tests/test_cli/test_data/test.json
biom/tests/test_data/__init__.py
biom/tests/test_data/bad_table.txt
biom/tests/test_data/bad_table.txt.gz
biom/tests/test_data/empty.biom
biom/tests/test_data/no-contents.biom
biom/tests/test_data/test.biom
biom/tests/test_data/test.json
biom/tests/test_data/test.json.gz
biom_format.egg-info/PKG-INFO
biom_format.egg-info/SOURCES.txt
biom_format.egg-info/dependency_links.txt
biom_format.egg-info/entry_points.txt
biom_format.egg-info/requires.txt
biom_format.egg-info/top_level.txt
doc/BIOM_LICENSE.rst
doc/Makefile
doc/conf.py
doc/index.rst
doc/_static/biom-format.png
doc/_static/copybutton.js
doc/_templates/layout.html
doc/_templates/autosummary/attribute.rst
doc/_templates/autosummary/class.rst
doc/_templates/autosummary/method.rst
doc/documentation/adding_metadata.rst
doc/documentation/biom_conversion.rst
doc/documentation/biom_format.rst
doc/documentation/index.rst
doc/documentation/quick_usage_examples.rst
doc/documentation/summarizing_biom_tables.rst
doc/documentation/table_objects.rst
doc/documentation/format_versions/biom-1.0.rst
doc/documentation/format_versions/biom-2.0.rst
doc/documentation/format_versions/biom-2.1.rst
doc/sphinxext/numpydoc/LICENSE.txt
doc/sphinxext/numpydoc/README.rst
doc/sphinxext/numpydoc/numpydoc/__init__.py
doc/sphinxext/numpydoc/numpydoc/comment_eater.py
doc/sphinxext/numpydoc/numpydoc/compiler_unparse.py
doc/sphinxext/numpydoc/numpydoc/docscrape.py
doc/sphinxext/numpydoc/numpydoc/docscrape_sphinx.py
doc/sphinxext/numpydoc/numpydoc/linkcode.py
doc/sphinxext/numpydoc/numpydoc/numpydoc.py
doc/sphinxext/numpydoc/numpydoc/phantom_import.py
doc/sphinxext/numpydoc/numpydoc/plot_directive.py
doc/sphinxext/numpydoc/numpydoc/traitsdoc.py
doc/sphinxext/numpydoc/numpydoc/tests/test_docscrape.py
doc/sphinxext/numpydoc/numpydoc/tests/test_linkcode.py
doc/sphinxext/numpydoc/numpydoc/tests/test_phantom_import.py
doc/sphinxext/numpydoc/numpydoc/tests/test_plot_directive.py
doc/sphinxext/numpydoc/numpydoc/tests/test_traitsdoc.py
examples/min_sparse_otu_table.biom
examples/min_sparse_otu_table_hdf5.biom
examples/obs_md.txt
examples/rich_sparse_otu_table.biom
examples/rich_sparse_otu_table_hdf5.biom
examples/sam_md.txt
licenses/numpydoc.txt
licenses/scikit-learn.txt
licenses/scipy.txt