AUTHORS
CHANGELOG.md
CONTRIBUTING.md
LICENSE
MANIFEST.in
README.md
requirements.txt
setup.cfg
setup.py
chanjo/__init__.py
chanjo/__main__.py
chanjo/compat.py
chanjo/exc.py
chanjo/log.py
chanjo/utils.py
chanjo.egg-info/PKG-INFO
chanjo.egg-info/SOURCES.txt
chanjo.egg-info/dependency_links.txt
chanjo.egg-info/entry_points.txt
chanjo.egg-info/not-zip-safe
chanjo.egg-info/requires.txt
chanjo.egg-info/top_level.txt
chanjo/annotate/__init__.py
chanjo/annotate/sambamba/__init__.py
chanjo/annotate/sambamba/run.py
chanjo/cli/__init__.py
chanjo/cli/calculate.py
chanjo/cli/database.py
chanjo/cli/init.py
chanjo/cli/link.py
chanjo/cli/load.py
chanjo/cli/root.py
chanjo/cli/sambamba.py
chanjo/cli/utils.py
chanjo/config/__init__.py
chanjo/config/core.py
chanjo/config/questions.py
chanjo/config/utils.py
chanjo/demo/__init__.py
chanjo/demo/cli.py
chanjo/demo/files/.DS_Store
chanjo/demo/files/ccds.min.bed
chanjo/demo/files/sample1.coverage.bed
chanjo/demo/files/sample2.coverage.bed
chanjo/demo/files/sample3.coverage.bed
chanjo/demo/files/sample4.coverage.bed
chanjo/demo/files/sample5.coverage.bed
chanjo/load/__init__.py
chanjo/load/link.py
chanjo/load/sambamba.py
chanjo/load/utils.py
chanjo/parse/__init__.py
chanjo/parse/bed/__init__.py
chanjo/parse/bed/parse.py
chanjo/parse/sambamba/__init__.py
chanjo/parse/sambamba/parse.py
chanjo/store/__init__.py
chanjo/store/api.py
chanjo/store/converter.py
chanjo/store/core.py
chanjo/store/models.py
chanjo/store/utils.py
docs/Makefile
docs/api.rst
docs/code.rst
docs/conf.py
docs/developer.rst
docs/faq.rst
docs/index.rst
docs/installation.rst
docs/interface.rst
docs/introduction.rst
docs/make.bat
docs/release-notes.rst
requirements/conda.txt
requirements/dev.txt
tests/.DS_Store
tests/test_annotate_sambamba.py
tests/test_utils.py
tests/config/test_config_core.py
tests/config/test_config_questions.py
tests/config/test_config_utils.py
tests/fixtures/.DS_Store
tests/fixtures/CCDS.mini.bed
tests/fixtures/CCDS.mini.coverage.bed
tests/fixtures/alignment.bed
tests/fixtures/alignment.sorted.bam
tests/fixtures/alignment.sorted.bam.bai
tests/fixtures/bad-syntax.json
tests/fixtures/ccds.mini.sorted.bam
tests/fixtures/ccds.mini.sorted.bam.bai
tests/fixtures/conflict.json
tests/fixtures/small_gene_test.bed
tests/fixtures/something.json
tests/fixtures/test.sambamba.bed
tests/load/get_bedrows.py
tests/load/test_load_utils.py
tests/load/test_sambamba.py
tests/parse/bed/test_bed_parse.py
tests/parse/sambamba/test_sambamba_parse.py
tests/store/test_store_core.py
tests/store/test_store_models.py
tests/store/test_store_utils.py