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Since we are not eukaryotic experts perhaps @hyphaltip would have some useful suggestions on how to implement this, but here are my thoughts:
1. We would need to use a eukaryotic gene finder like […
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Hi, I've tried to run seed-to-alignment in another computer and this time it ran to the finish, but all sequences were removed (they get flagged Keep=false) and the final file (06_alignment.fasta) onl…
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Dear,
We've been using roary with pleasure the last few months, so thanks for this awesome piece of software!
However, we're missing out on one certain feature: adding an outgroup to the core gene a…
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From @dexink
I was just about to ask about whether there was already a ticket! ha
...Because the more I check into Aro1, the more I don't like it.
The length, weight, etc., were originally publis…
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The following relations do not have textual definitions. Some seem obvious by their labels, but I never trust that. I'll be trying to define these based on the paper and citation tracking, but contrib…
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Hello,
I am slightly confused on how to interpret queries assigned to OGs defined at different taxonomic levels as shown below:
```
#query eggNOG_OGs Preferred_name COG_category GOs EC KEGG_ko …
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Hi,
I have a question regarding the behavior of CAT. I have (will have, it's running) a 63 genome alignment and transcriptomic data for a minority of them (~7), the reference annotation seems to be…
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Bonjour,
J'ai un problème à l'étape Orthogroup tool et je ne comprend pas le message d'erreur.
```
Traceback (most recent call last):
File "/w/galaxy/galaxy3/shed_tools/toolshed.g2.bx.psu.e…
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Hi Val.
I've pulled the manual paralogs out of the contigs and noticed that some of the paralogs in your new list are already annotated in the contigs and are on the gene pages. I'm …
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Based on @harryhoch's mockups, I started the redesign. The first thing I did was to clean up the page and related code. I also rephrased the section titles as you can see from the second image. In sec…