Discussed briefly offline: this PR only for notebook code cells and .py
files


On Wed, Apr 16, 2014 at 2:26 PM, Daniel McDonald
<notifications@github.com>wrote:

> In ipynb/module2.ipynb:
>
> > @@ -121,7 +207,332 @@
> >       "cell_type": "markdown",
> >       "metadata": {},
> >       "source": [
> > -      "Now, lets setup the paths and some helper methods. The first PCoA plot is a combination of the American Gut, Human Microbiome Project, Personal Genome Project and Global Gut datasets. These projects all used three different sequencing technologies however, and in order to combine them, we need to use the BIOM tables derived from sequence data all trimmed to the same length. See [here](http://www.ncbi.nlm.nih.gov/pubmed/23861384) for a more detailed discussion about meta-analyses."
> > +      "For the contaminant filtering, we need to setup a few paths. Lets get that taken care of."
>
> @adamrp <https://github.com/adamrp>, looks like some mentions are still
> there. Want me to correct these?
>
> —
> Reply to this email directly or view it on GitHub<https://github.com/biocore/American-Gut/pull/85/files#r11705225>
> .
>