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All posts created by smg366
| Link to this post | posted 02 Feb, 2026 15:31 | |
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Yes it is sgurney, and I would like it to be switched. Thank you.woodj@hhmi.org |
Posted in: PECAAN → Admin access on PECAAN
| Link to this post | posted 02 Feb, 2026 15:31 | |
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Yes it is sgurney, and I would like it to be switched. Thank you.woodj@hhmi.org |
Posted in: PECAAN → Admin access on PECAAN
| Link to this post | posted 02 Feb, 2026 15:31 | |
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Yes it is sgurney, and I would like it to be switched. Thank you.woodj@hhmi.org |
Posted in: PECAAN → Admin access on PECAAN
| Link to this post | posted 31 Jan, 2026 21:07 | |
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Who do we email to get admin access to PECAAN? I have a login already, but it's through my previous Institution (Drexel University). Should I make a new account so I can link myself to the University of St Andrews and add students? Thank you |
Posted in: PECAAN → Admin access on PECAAN
| Link to this post | posted 18 Apr, 2024 11:16 | |
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Hi, I am trying to use PhamNexus on the seaphage 2020 VM. When I open it and search for updates to the database it says there are no updates available. When I click through to select files there are no cluster names or phage names or listed for me to select. How can I access the files on the database? Thank you |
Posted in: Bioinformatic Tools and Analyses → PhamNexus on SEA-VM
| Link to this post | posted 22 May, 2023 13:41 | |
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What are we calling the gene in the B cluster with pfam hits to holin, discussed above?. Phage Inverness gp16 has 95% probability with 40% coverage to holin on HHPRED. HHPRED results in the attachment. There are still only 13 B cluster phages calling holin and the rest calling Hypothetical protein. |
157KbPosted in: Cluster B Annotation Tips → Holin
| Link to this post | posted 10 Apr, 2023 07:19 | |
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I am a little confused with our current calling of membrane proteins. Should we be calling membrane proteins as functions within our annotations? From PhagesDB and Phamerator it looks like there is a move away from that. |
Posted in: Annotation → Membrane proteins
| Link to this post | posted 10 Apr, 2023 07:19 | |
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I am a little confused with our current calling of membrane proteins. Should we be calling membrane proteins as functions within our annotations? From PhagesDB and Phamerator it looks like there is a move away from that. |
Posted in: Annotation → Membrane proteins
| Link to this post | posted 20 May, 2022 14:07 | |
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Thank you for getting back to me so quickly! Susan |
Posted in: Functional Annotation → Membrane protein
| Link to this post | posted 20 May, 2022 14:02 | |
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I am doing QC for a DE genome, where there are a number of Membrane Protein functions called. SOSUI, TMHMM and Topcons all support at least 2 transmembrane domains, but no other phages have called membrane proteins for these genes. I just want to check that we are still calling membrane protein as a function if there is evidence for it? |
Posted in: Functional Annotation → Membrane protein