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| ID | Project | Category | View Status | Date Submitted | Last Update | ||||
| 0001932 | MEGA | [All Projects] Feedback | public | 2020-04-20 08:21 | 2020-04-23 14:25 | ||||
| Reporter | guest | ||||||||
| Assigned To | gstecher | ||||||||
| Priority | normal | Severity | minor | Reproducibility | have not tried | ||||
| Status | resolved | Resolution | no change required | ||||||
| Platform | OS | ||||||||
| Product Version | MEGA 11 (Graphical Interface version) | ||||||||
| Target Version | Fixed in Version | ||||||||
| Summary | 0001932: Placement of short reads on constrained topology | ||||||||
| Description | I would like to add some short reads without changing the topology of the tree. Is this possible to do within the MEGA X suite? I know that I could go the RAxML + pplacer way, but I have made the trees with MEGA and it would be more comfortable to keep working with the same software. Thanks and best wishes, Stefano | ||||||||
| Tags | No tags attached. | ||||||||
| Attach Tags | (Separate by ",") | ||||||||
| First Name | Stefano | ||||||||
| Last Name | Scilipoti | ||||||||
| ss@bios.au.dk | |||||||||
| Confirm Email | ss@bios.au.dk | ||||||||
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(0004451) gstecher (administrator) 2020-04-23 14:25 |
Hi Stefano, I am writing in response to your question regarding the MEGA software. I am not sure I understand what you are trying to do but it sounds like you might want to try the user tree analysis in MEGA. If you already have a tree in a newick file then from the main form you can run User Tree->Analyze User Tree by Maximum Likelihood where your two input data files will be the newick file and a multiple sequence alignment that has the short reads added. I am not sure if this is what you really want but it sounds like the closest thing available in MEGA. -- Best regards, Glen Stecher Institute for Genomics and Evolutionary Medicine igem.temple.edu |
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Issue History |
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| Date Modified | Username | Field | Change |
| 1969-12-31 17:33 | user19 | Status | new => assigned |
| 1969-12-31 17:33 | user19 | Assigned To | => agasky |
| 2020-04-20 08:21 | guest | New Issue | |
| 2020-04-23 14:25 | gstecher | Note Added: 0004451 | |
| 2020-04-23 14:25 | gstecher | Status | new => resolved |
| 2020-04-23 14:25 | gstecher | Resolution | open => no change required |
| 2020-04-23 14:25 | gstecher | Assigned To | => gstecher |
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Issue History |
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