MantisBT - MEGA
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IDProjectCategoryView StatusDate SubmittedLast Update
0000186MEGA[All Projects] Feedbackpublic2016-06-03 11:332016-06-23 07:56
Reporterguest 
Assigned Togstecher 
PrioritynormalSeverityminorReproducibilityhave not tried
StatusresolvedResolutionno change required 
PlatformOSOS Version
Product VersionMEGA 11 (Graphical Interface version) 
Target VersionFixed in Version 
First NameKristen
Last NameRichter
Emailkricht@midwestern.edu
Confirm Emailkricht@midwestern.edu
Summary0000186: Model with Invariable Parameter
DescriptionGood 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
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Issue History
Date ModifiedUsernameFieldChange
2016-06-03 11:33guestNew Issue
2016-06-23 07:56gstecherNote Added: 0003679
2016-06-23 07:56gstecherStatusnew => resolved
2016-06-23 07:56gstecherResolutionopen => no change required
2016-06-23 07:56gstecherAssigned To => gstecher

Notes
(0003679)
gstecher   
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