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Recent Activity
All posts created by GregFrederick@letu.edu
Link to this post | posted 01 Feb, 2016 22:15 | |
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fogartym1GregFrederick@letu.edufogartym1 Excellent!!!! Thanks! |
Posted in: Phamerator → Tutorial on Phamerator and Starterator Use?
Link to this post | posted 01 Feb, 2016 21:40 | |
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fogartym1 The guide is useful. Thanks. I think this was the day I was sick in the morning and I apparently missed a lot. Can you help me find the link to the "live stream". I'm not finding it as I scan SEAPhages.org pages. Thanks in advance. Greg |
Posted in: Phamerator → Tutorial on Phamerator and Starterator Use?
Link to this post | posted 28 Jan, 2016 20:21 | |
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Are there tutorials available for these two softwares? Those for DM are excellent for helping students (and new faculty) walk through issues that come up. If there are video or text tutorials available for the software inside the VM that would be really wonderful? Show me the way! (I'm almost certain they are out there. So please help me find them!) Thanks. |
Posted in: Phamerator → Tutorial on Phamerator and Starterator Use?
Link to this post | posted 27 Jan, 2016 21:14 | |
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cmageeney Thanks. Super info! gf |
Link to this post | posted 27 Jan, 2016 20:34 | |
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Keith HutchisonGregFrederick@letu.eduKeith Hutchison None of mine bumped into this. Glad you found a work-around. gf |
Posted in: DNA Master → Running DNA Master on a Mac using Wine
Link to this post | posted 27 Jan, 2016 17:21 | |
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Lee HughesGregFrederick@letu.edu OK. Thanks again. That will save students some time. |
Link to this post | posted 27 Jan, 2016 15:02 | |
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One more question: (OK. More than one!) We are having our students BlASTp the gene products that would be produced from all potential start codons, including the longest ORF, genemark, and glimmer calls and any other potential start codons in between. I have had them using NCBI for these blasts. Would the PhagesDB BLASTp be a better option? It certainly is faster. The reasoning is that this will help them be more confident of their start codon call. Is this necessary? A good practice? A waste of time? We are about to introduce them to starterator on Thursday. Will using starterator reduce/eliminate the need/value of doing this? Thanks again. GF |
Link to this post | posted 27 Jan, 2016 14:57 | |
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Lee Hughes Thanks again. This is a great help. |
Link to this post | posted 27 Jan, 2016 14:53 | |
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Lee Hughes Thanks. I think we will probably do this in the future too. |
Posted in: SEA-PHAGES Virtual Machine → Oracle VB Updates - How often do you recommend students upgrade?
Link to this post | posted 27 Jan, 2016 14:52 | |
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Thanks again. In the afternoon class we updated to the newest version of DM that was released yesterday and the problem seems to go away. But we also made certain everyone "posted" before saving. So I was not certain which was actually the fix. I will send your post info above to all students to make certain they "post" one way or the other prior to "saving". Thanks. Greg (Just FYI. Related to above. I believe the DM release of yesterday [v.5.22.23 Build 2471] has an incorrect date on it. Help/About splash screen says 1/26/2015. The last update was dated 1/5/2015) |
Posted in: DNA Master → DM File Edited Notes Not Saved