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Project description is a Jupyter widget that allows users to view genomic reads, variants and features in a python notebook. builds off of pileup.js.


from pip:

$ pip install
$ jupyter nbextension enable --py --sys-prefix  # can be skipped for notebook version 5.3 and above

from Source:

For a development installation (requires npm >= 3.10.10 and node.js >= 6.11.0),

$ git clone
$ cd mango-viz
$ rm -r bdgenomics/mango/pileup/static


$ pip install -e .
$ jupyter nbextension install --py --symlink --sys-prefix
$ jupyter nbextension enable --py --sys-prefix

After pileup.js is installed once, you can just run the following for development:

$ cd mango-viz
$ rm -r bdgenomics/mango/pileup/static/
$ pip install -e .
$ jupyter nbextension install --py --symlink --sys-prefix
$ jupyter nbextension enable --py --sys-prefix

For running examples:

$ First run installation, explained above.
$ cd examples
$ jupyter notebook

For javascript development type checking:

$ cd js
$ npm run test

Project details

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