Ben J Woodcroft
Ben J Woodcroft
What shall we say are the stringency settings? Just a simple e-value thing, with 1e-5, 1e-20, 1e-40 ? Or do we include % identities in it as well? I would...
> We need one setting for "short highly similar sequences" (primers for DNA query or short peptides). It came up here: >https://plus.google.com/u/0/106914048811184527917/posts/aiZX47dewcw This URL doesn't resolve for me.. > And...
I often blast (non-degenerate) primers against transcript databases and it works fine, actually. Don't get great e-values but it gets there with a bit of manual inspection. Still, probably could...
Nicely noticed. Should we be opinionated the default settings to be blastn instead? I don't see why not.
even blastn? blastp sure..
Not sure if you understand me - I was trying to say that blastn is rarely used anyway for searching when query and db are from distantly related organisms. Of...
Alrighty, thanks Aaron. On Feb 2 2021, at 1:09 pm, Aaron Mussig wrote: > > > Hi Ben, > GTDB-Tk can't do that specifically but we can look at adding...
Hi, Interesting feature request. I'm not very familiar with GSA, though, and couldn't find any (English) documentation that gives a guide as to how to interact programmatically. Implementing this in...
Thanks. I've contacted them.