.bumpversion.cfg
.cookiecutterrc
.coveragerc
.editorconfig
.gitignore
.travis.yml
AUTHORS.rst
CHANGELOG.rst
CONTRIBUTING.rst
LICENSE
MANIFEST.in
README.md
appveyor.yml
setup.cfg
setup.py
tox.ini
ci/appveyor-bootstrap.py
ci/appveyor-download.py
ci/appveyor-with-compiler.cmd
ci/bootstrap.py
ci/templates/.travis.yml
ci/templates/appveyor.yml
docs/authors.rst
docs/changelog.rst
docs/conf.py
docs/contributing.rst
docs/index.rst
docs/installation.rst
docs/readme.rst
docs/requirements.txt
docs/spelling_wordlist.txt
docs/usage.rst
docs/reference/index.rst
docs/reference/prism.rst
images/annotate.png
images/logo_bgwhite.png
images/scatter.png
images/workflow.png
src/prism/__init__.py
src/prism/__main__.py
src/prism/annotate.py
src/prism/cli.py
src/prism/deconvolute.py
src/prism/extract.py
src/prism/hmm.py
src/prism/mixture.py
src/prism/preprocess.py
src/prism/proofreading.py
src/prism/scatter.py
src/prism/util.py
src/subclone_prism.egg-info/PKG-INFO
src/subclone_prism.egg-info/SOURCES.txt
src/subclone_prism.egg-info/dependency_links.txt
src/subclone_prism.egg-info/entry_points.txt
src/subclone_prism.egg-info/not-zip-safe
src/subclone_prism.egg-info/requires.txt
src/subclone_prism.egg-info/top_level.txt
tests/test_prism.py