Yoshiki Vázquez Baeza

I agree, perhaps the parameter names should be more specific to the "arrows" and "points" and instead be `--m-point-metadata-file` and `--m-arrow-metadata-file`. With all the different types of data that can...

This might not work well with newer versions of QIIME2 since the move to 1.0 is happening (as far as I can tell) as of the next version.

In lack of a better framework-based solution. Would it make sense to only create this "diagnostic directory" under the current directory if the user activates the --verbose flag? The directory...

Currently this is not implemented, but I believe it is not too hard to put in place. From some googling around we are already calculating some of the necessary pieces...

> ... since it is such a new metric a Python implementation probably doesn't exist yet. Sad sad world we live in, seems like the publication is accompanied by R...

My suggestion would be to start with one of the functions, that way the pull request will be easier to review and we'll have more flexibility to make big changes...

That's a good suggestion, plus starting with just the VLR function rather than the pairwise driver(?) would probably be best.

I think @ebolyen might know of a workaround for this, this has definitely come up before. On (Apr-02-19|16:31), Marcus Fedarko wrote: >Here's a full transcript of the two steps taken...

AFAIK the C implementation should provide an interface to yield objects. I looked into this not long ago. On Apr 8, 2014, at 2:03 PM, Daniel McDonald [email protected] wrote: >...

[Pyfasta](https://github.com/brentp/pyfasta) is AFAIK the fastest FASTA parser. Hinting at the fact that we may be able to squeeze some more speed-ups with pure python. My notebook [here](http://nbviewer.ipython.org/gist/ElDeveloper/a0c3b6f4ff7b63663869). We gotta go...