0004580: Not available of align and analysis

Notes
(0003198) user614 1969-12-31 17:33	Hello Rodrigo, I am writing in response to the bug report you recently submitted regarding an error when running ancestral sequence inference using MEGA. It looks like the error is caused because the required Newick file for this analysis is missing. The path to this file should be given in the command string as ‘–t theTreeFile.nwk’. We will update MEGA-CC so that an informative error message is given. Thanks for the feedback. Best regards, Glen Stecher

(0003216) user614 1969-12-31 17:33	Hi, Glen, Thank you! Best regards, Prof. Dr. Rodrigo Barban Zucoloto Universidade Federal da Bahia Instituto de Biologia Departamento de Biologia Geral Laboratório de Genética de Populações e Evolução Molecular Tel.: (+55)071-3283-6539 Cel.: (+55)071-8707-1628 (OI) Cel.: (+55)071-9374-7429 (TIM) 2013/9/3 Glen Stecher <gstecher@mainex1.asu.edu> Hi Rodrigo, Yes, it is easily done with MEGA-CC. First, construct the phylogeny using the sequence data and the ML method. This will produce a newick file of the inferred tree. Then you can use it to run ancestral sequence inference. Best regards, Glen Stecher Application Programmer Center for Evolutionary Medicine Phone: 480-965-3880 Web: http://cemi.asu.edu [^] From: Rodrigo Barban Zucoloto [mailto:rbzucoloto@gmail.com] Sent: Tuesday, September 03, 2013 10:31 AM To: Glen Stecher Subject: Re: MEGA bug Hi, I thought that this analysis could be made without the prior statement of a tree. In my case it would be very important that a tree was estimated directly from the data by ML, because I do not have a prior information! Thank you, Prof. Dr. Rodrigo Barban Zucoloto Universidade Federal da Bahia Instituto de Biologia Departamento de Biologia Geral Laboratório de Genética de Populações e Evolução Molecular Tel.: (+55)071-3283-6539 Cel.: (+55)071-8707-1628 (OI) Cel.: (+55)071-9374-7429 (TIM) 2013/9/3 Glen Stecher <gstecher@mainex1.asu.edu> Hello Rodrigo, I am writing in response to the bug report you recently submitted regarding an error when running ancestral sequence inference using MEGA. It looks like the error is caused because the required Newick file for this analysis is missing. The path to this file should be given in the command string as ‘–t theTreeFile.nwk’. We will update MEGA-CC so that an informative error message is given. Thanks for the feedback. Best regards, Glen Stecher Application Programmer Center for Evolutionary Medicine Web: http://cemi.asu.edu [^]

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Issue History
Date Modified	Username	Field	Change
1969-12-31 17:33	user614	Status	new => assigned
1969-12-31 17:33	user614	Assigned To	=> user614
1969-12-31 17:33	user614	Note Added: 0003198
1969-12-31 17:33	user614	Note Added: 0003216
1969-12-31 17:33	user614	Status	assigned => resolved
1969-12-31 17:33	user614	Resolution	open => no change required
2023-02-20 18:55	guest	New Issue
2023-04-14 00:44	guest	Note Added: 0006238

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