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| ID | Project | Category | View Status | Date Submitted | Last Update | ||||
| 0000186 | MEGA | [All Projects] Feedback | public | 2016-06-03 11:33 | 2016-06-23 07:56 | ||||
| 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 | 0000186: Model with Invariable Parameter | ||||||||
| Description | Good afternoon, I am the Research Assistant for the CVM at Midwestern University. We have been using MEGA software to demonstrate a potentially unique assemblage structure of Giardia. To construct a phylogenetic tree at the Beta-Giardin locus, the best DNA/Protein Model selected is the Kimura 2-Parameter with Invariable Sites, but I cannot find in your product help or in online forums how to select the "+I" option when constructing a neighbor-joining tree. Thank you for your help, Kristen | ||||||||
| Tags | No tags attached. | ||||||||
| Attach Tags | (Separate by ",") | ||||||||
| First Name | Kristen | ||||||||
| Last Name | Richter | ||||||||
| kricht@midwestern.edu | |||||||||
| Confirm Email | kricht@midwestern.edu | ||||||||
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(0003679) gstecher (administrator) 2016-06-23 07:56 |
Hi Kristen, I am writing in response to your question regarding the MEGA software. The model selection analysis in MEGA is a Maximum Likelihood based method, not a distance based method. So the +I option is not applicable when using NJ tree construction. You can use it when constructing an ML tree. -- 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 |
| 2016-06-03 11:33 | guest | New Issue | |
| 2016-06-23 07:56 | gstecher | Note Added: 0003679 | |
| 2016-06-23 07:56 | gstecher | Status | new => resolved |
| 2016-06-23 07:56 | gstecher | Resolution | open => no change required |
| 2016-06-23 07:56 | gstecher | Assigned To | => gstecher |
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Issue History |
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