MantisBT - MEGA
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IDProjectCategoryView StatusDate SubmittedLast Update
0002003MEGA[All Projects] Feedbackpublic2020-05-22 11:572020-05-27 15:59
Reporterguest 
Assigned Togstecher 
PrioritynormalSeverityminorReproducibilityhave not tried
StatusresolvedResolutionno change required 
PlatformOSOS Version
Product VersionMyPEG 
Target VersionFixed in Version 
First NameMahnaz
Last NameKiani
Emailmahnazk@thegreencell.com
Confirm Emailmahnazk@thegreencell.com
Summary0002003: Error in phylogeny tree with bootstraps
DescriptionHello,

I have a question, when I ran NJ tree construction using bootstraping, I got the following error message:
"Notice: During the bootstrapping process 332 of 500 replicate failed and so bootstrap values are based on only 168 replicates. Appreciate your help.

Thanks,
Mahnaz

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Issue History
Date ModifiedUsernameFieldChange
1969-12-31 17:33user19Note Added: 0001794
1969-12-31 17:33user19Statusnew => resolved
1969-12-31 17:33user19Resolutionopen => fixed
1969-12-31 17:33user19Assigned To => user19
2020-05-22 11:57guestNew Issue
2020-05-27 15:59gstecherNote Added: 0004466
2020-05-27 15:59gstecherStatusnew => resolved
2020-05-27 15:59gstecherResolutionopen => no change required
2020-05-27 15:59gstecherAssigned To => gstecher

Notes
(0001794)
user19   
1969-12-31 17:33   
Were just not implemented. I Implemented these for Mac/Linux.
(0004466)
gstecher   
2020-05-27 15:59   
Hi Mahnaz,

I am writing in response to your question regarding the MEGA software. The warning message you received is not an error. It just indicates that the random sampling of data during the bootstrap procedure produced some data sets for which some distances could not be computed and so those replicates were tossed out. It indicates that the alignment is problematic for distance-based tree construction. You might want to check the quality of the data or use some other tree construction method such as Maximum Likelihood.

--
Best regards,
Glen Stecher
Institute for Genomics and Evolutionary Medicine
igem.temple.edu