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John McCallum – Code Meets CropsCode Meets Crops
http://cfljam.github.io/
Code Meets Crops
http://cfljam.github.io/
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John McCallum – Code Meets Crops | cfljam.github.io Reviews
https://cfljam.github.io
Code Meets Crops
cfljam.github.io
Authoring R in Jupyter Notebooks on Docker – John McCallum – Code Meets Crops
http://cfljam.github.io/R-Authoring-with-Jupyter
Authoring R in Jupyter Notebooks on Docker. Although you can install Jupyter R kernels on a PC (at least on OSX) I will focus on using Docker. This provides the same environment regardless of OS. See my previous post. On creating a Docker definition. For a local Jupyter server. Using R in Jupyter Notebooks. The major choice you face is whether to :. Use a Python kernel with option for R cell magics using rpy2. Use the newer R kernel. Example Notebooks are provided in the Notebooks. Optionally store noteb...
Links – John McCallum – Code Meets Crops
http://cfljam.github.io/BlogRoll
Blogs and Links I Like.
Hello World – John McCallum – Code Meets Crops
http://cfljam.github.io/Hello-World
I like using computers to get genetics done, and trying to explain how. Im inspired by modern, lightweight expressive technologies like Markdown. My first taste of computing was when my father let me play at writing interpreted code in FOCAL. On a Digital PDP-8. But now I like Virtual Machines and modern interpreted languages like R and python. This is where I will share my explorations and inspirations. Written on March 3, 2014.
Gisting Jupyter (iPython) Notebooks – John McCallum – Code Meets Crops
http://cfljam.github.io/GistingIPYNBs
Gisting Jupyter (iPython) Notebooks. Github provides an amazing environment for developing code and data resources in a social environment but the learning curve is rather steep. By contrast, Github Gist. Provides a much simpler versioned storage space for simple files AND. Gists which have an unguessable hash ID hidden from search engines. Sooo. It provides a place to store modest amounts of working code or data, hidden from the web. But you can share the link to it how YOU. Written on October 12, 2014.
About – John McCallum – Code Meets Crops
http://cfljam.github.io/about
I like doing science with plants and people and data.
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» Interactive R Notebooks with Jupyter and SageMathCloud Statisfactions: The Sounds of Data and Whimsy
http://statisfactions.com/2015/interactive-r-notebooks-with-jupyter-and-sagemathcloud
Statisfactions: The Sounds of Data and Whimsy. Interactive R Notebooks with Jupyter and SageMathCloud. Posted on June 20, 2015. Interface allows users to seamlessly mix code, output, and markdown commentary all in the same document. Sound a bit like R Markdown? The difference is that in a Jupyter Notebook, you execute the code right in the browser and view everything in the same visual view. Featuring a wide variety of cool static renderings of notebooks. You can then click on the. Or simply press the on...
It’s time to reboot bioinformatics education
http://toddharris.net/blog/2015/03/23/its-time-to-reboot-bioinformatics-education
Todd Harris, PhD. Facilitating scientific discovery at the intersection of genetics, genomics, bioinformatics, big data, cloud computing, and open science. It’s time to reboot bioinformatics education. March 23, 2015. Nearly 15 years after completion of the human genome, undergraduate and graduate programs still aren’t adequately training future scientists with the basic bioinformatics skills needed to be successful in the “big data in biology” era. Why? Bioinformatics is here to stay. Get used to it.
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John McCallum – Code Meets Crops
Authoring R in Jupyter Notebooks on Docker. Although you can install Jupyter R kernels on a PC (at least on OSX) I will focus on using Docker. This provides the same environment regardless of OS. See my previous post. On creating a Docker definition. For a local Jupyter server. Running R in Jupyter Notebooks with Docker. When Github recently enabled rendering of Jupyter Notebooks. They provided a compelling reason for R users try out the data document authoring power that Jupyter Notebooks.
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