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Add option to scramble a study for saving and sharing unpublished results#274
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Add option to scramble a study for saving and sharing unpublished results#274
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…ced # tests to about 9000 (from 18000)
…if no GO categories were enriched
…for checking domain of GO term
Gene ontology
* 'master' of github.com:YeoLab/flotilla: (31 commits) Add GO to release notes fix bug addded while linting fix pep8 remove plot_study_sample_legend because it's unused Fix lint errors because pyflakes got majorly strict remove go.py (replaced with the data model) Fix tests and add more for a total of 98% coverage! add example gene ontology data Add tests for gene ontology data Sort dataframe by p value Make GeneOntologyData accessible from base flotilla also check that features of interest overlap with GO term make sure provided domains are converted to frozenset, and fix logic for checking domain of GO term access 0th value because 0th item by series may not be valid better error message also say error for why species data wasn't loaded df.empty is attribute, not method make sure to create defaultdict properly Add go term domains and name to growing defaultdict, and return None if no GO categories were enriched stdout --> warnings ...
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Add option to
study.saveto save the current data and shuffle the gene and sample IDs so the biological signal is lost. For saving datapackages for debugging purposes, so users can submit datapackages without worrying about losing published resultsCheck for code coverage. To run code coverage on only the file you changed,
for example
flotilla/compute/splicing.py, use this command:py.test --cov flotilla/compute/splicing.py --cov-report term-missing flotilla/test/compute/test_splicing.pywhich will show you which lines aren't covered by the tests.
numpydoc
style docstrings?
make pep8andmake lintoutputchanges were made?