Camille Scott

Are you talking about in the actual BUSCO script? If so, that's not really under my control, though this is a good reason why they should be consider putting the...

Huh. Almost none of dammit's downstream programs support full IUPAC ambiguity codes, and `X` isn't even proper IUPAC. So, I think dammit is behaving exactly as it should in this...

I definitely support it. Do you have ideas on how to represent these in the gff3? The standard really demands having start/end coordinates for each feature; I suppose I could...

Been looking into this. The output from BUSCO is very raw -- many hits per BUSCO, sometimes multiple per transcript, combined from both hmmer and tblastn. I think the short...

Bleh, yeah, it needs the newer version. Forgot to add the version check for GNU parallel into the backport release. On Wed, Nov 30, 2016 at 5:18 PM, Matt MacManes...

seaborn uses pcolormesh under the hood. I went with their implementation because it's pretty well tested and does all the fiddly stuff like label organization, though open to writing from...

My reasons here were: 1. Adjacency matrices aren't that hard to plot, but for that matter neither are heatmaps; and yet, people still prefer seaborn. If we can take a...

I think Jarrod has provided a nice example for my reasoning here. Also note that this implementation doesn't require seaborn to be added to grave's requirements; it fails gracefully and...

As a compromise, let's just say for now that we'll leave this open for a month or so and see where things are; if there's been sufficient movement in our...

I wrote a couple nice functions for adjacency matrices and degree dists the other night, I'll push them up when I'm done skiing today :) On Mar 31, 2018 1:45...