-
Hi, I have an MSA file generated from UPP and processed by trimal, it has 1053 seqs.
Now I want to use uDance to build a phylogenetic tree with de novo mode (no backbone tree provided, just an MSA f…
-
Hope this is the right place for this issue.
Anyway, as part of our [Qiita archive releases](https://qiita.ucsd.edu/) (More Info -> BETA: download Archive files) we are building trees that contain…
-
Hi there,
First time phyloglm user here, so apologies for my newbie questions!
1. Following a previous question here about interpretation of alpha, I have rescaled my input phylogeny so that the…
-
Requested by @NicolaDM
-
Hi, I'm trying to convert the jplace table but it seems like my jplace file has no entries for `multiclass`. Can you explain why this is? I was assuming that the jplace files are the same as the outpu…
-
Hello,
I'm looking to create a custom database to run in Phylosift and keep getting error messages when trying to build the database using The Monkey. I can index the created database, but the taxa …
-
Hi
Firstly, thanks for developing such a great tool! I've had an odd issue occur whereby some zero-length branches in the reference tree get replaced with a branch length of 0.1053605157 in the epa…
-
It would be nice to have empress automatically label internal with a taxonomy if a user provided a taxonomy .qza file. I thought we had this feature already implemented but after a discussion with Imr…
-
In pangolin 4.0.6, the column qc_note has been introduced into the lineage report. I wanted to clarify if the term 'Ambiguous_content' in the qc note column is as same as 'N_content'.
-
Hello!
I am playing around with `gappa analyze edgepca`, and I wanted to work programatically with which edges are the ones contributing the most for each component. I want to have an overview of t…