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This article covers the basics of using Jupyter Notebooks for data science and You can download the latest version of Anaconda from here to manually convert your notebook into a different format like HTML or PDF!
Your notebook URL can be shared among collaborators.
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We ran these programs on Ion Torrent data with those defaults and found that MU produced an order of magnitude fewer calls, and VS produced an order of magnitude more, than IR did.
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Strategies for identification of somatic variants using the Ion Torrent deep targeted sequencing platform.
To get started with IPython in the Jupyter Notebook see our official example To learn more about IPython you can download our talks and presentations.
Furthermore, our visual inspection (discussed below) indicated poor performance of these two callers' default settings on Ion Torrent data.
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PPV for the individual callers and sensitivity for all strategies by assuming that the observed rates in the inspected variants also held in the uninspected variants to achieve an estimate of the true number of DNA mutations among all called variants.
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Zeppelin is open source and comes with support for interpreters such as Python, markdown, Shell, and Scala; multiple users can access a single notebook simultaneously, with changes reflected in real time; however, Apache Zeppelin will need server installation.
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We've added a new feature to tutorials that allows users to open the notebook associated with a tutorial in Google Colab.
Although our results and conclusions are meant to be strictly interpreted for research rather than clinical settings, we surmise that the analytical methods we outline in our present study are generalizable to various somatic study designs, particularly using IONT sequencing data.
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