Link to this post | posted 16 Mar, 2018 21:56

scaruso

For example, the tRNA evidence is stripped out of a PECAAN notes file, as is the SIF: category headers, and the Syn category in particular. As I am using it for post annotation QC, I am going to try it and send it in, barring direction on here otherwise. For what it's worth, PECAAN people: what a nice system! I don't know that I want to use it for the original annotations, I want the students to dig in a bit. But it sure makes it easier for me to QC six of them prior to sending them in to PITT during Spring Break. Steve

Link to this post | posted 14 Mar, 2018 20:42
scaruso	Hello, I am considering trying out PECAAN for in-house QC prior to sending in the files this year. I noticed that the notes produced by PECAAN are quite detailed, but don't match the new format exactly. If we use PECAAN, does that mean we should not use the PECAAN notes, or are they an acceptable alternative? Thanks, Steve Edited 14 Mar, 2018 20:42

Link to this post | posted 02 Mar, 2018 16:50
scaruso	Well, I inadvertently expanded it to other clusters that are missing them, I apologize. But it is an interesting problem we have run into. We didn't see them in our BG phage, and haven't found them in any of our BI(2 or 4) phages. Steve Edited 02 Mar, 2018 16:58

Link to this post | posted 01 Mar, 2018 22:31
scaruso	We have looked very closely on all our Strep. phages (BG, BH, BI, etc.), and couldn't find them. I'm glad it's not just us. But we'll keep looking!

Link to this post | posted 23 Feb, 2018 19:52
scaruso	I was able to use it today. Steve

Link to this post | posted 14 Feb, 2018 13:28
scaruso	It is working now. I can see an update has been done, there may be causation in the correlation, though I do not know for sure. Steve

Link to this post | posted 23 Jan, 2018 16:24
scaruso	A new update seems to have it working again. Steve

Link to this post | posted 22 Jan, 2018 20:08
scaruso	Dan Russell Steven Caruso Those of us who use any of the alternate hosts still have to use the VM, sadly. Steve For now! I know the other Steve C. is working on having multiple databases available online, so at some point that will no longer be the case. –Dan Ever forward! Steve

Link to this post | posted 22 Jan, 2018 20:02
scaruso	Those of us who use any of the alternate hosts still have to use the VM, sadly. Steve

Link to this post | posted 18 Jan, 2018 16:05
scaruso	Lee, I'm glad it isn't just me! I have been using OrthoAni here: https://www.ezbiocloud.net/tools and it's very nice, but you are limited to 10 genomes at a time, even if you install it. Steve