(I gave a talk on this on Monday, April 11th - you can see the slides slides here, on figshare.
This is a Reproducible Blog Post. You can regenerate all the figures and play with this software yourself on binder.)
So, my latest enthusiasm is MinHash sketches.
A few weeks back …
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So, there's this fairly large collection of about 700 RNAseq samples, from 300 species in 40 or so phyla. It's called the Marine Microbial Eukaryotic Transcriptome Sequencing Project (MMETSP), and was funded by the Moore Foundation as a truly field-wide collaboration to improve our reference collection for genes (and more …
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I'm writing a proposal to the Sloan Foundation for about $20k to support a workshop to hack on mybinder. Comments solicited. Note, it's, umm, due today ;).
(I know the section on "major related work" is weak. I could use some help there.)
If you're interested in participating and don't mind …
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This March, Andreas Hejnol invited me to give a talk in Bergen, Norway, and as part of the trip I arranged to also give a trial workshop on "computational reproducibility" at the University in Oslo, where my friend & colleague Lex Nederbragt works.
(The workshop materials are here, under CC0.)
The …
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Over the last few months, I've been playing with hypothes.is and thinking about how to use it to further my scientific work. This resulted in some brainstorming with Jon Udell and Maryann Martone about, well, lots of things. And now we're putting in an open science prize entry!
tl …
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If you haven't seen mybinder.org, you should go check it out. It's a site that runs IPython/Jupyter Notebooks from GitHub for free, and I think it's a solution to publishing reproducible computational work.
For a really basic example, take a look at my demo Software Carpentry lesson. Clicking …
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