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Message started by Pluszzz on Mar 12th, 2011 at 11:14pm

Title: Names
Post by Pluszzz on Mar 12th, 2011 at 11:14pm
How I can change blast results names automatically when I make phylogrenetic tree?

Or see the whole id number, to change it by myself.
I can export blast result (fasta), but sequences will be saved as result_1, result_2 and so on.

When I move mouse cursor on some blast result ( see image), I can see beggining of the "def" (so ugene has needed information), but I don't know how to see the whole "def" or/and automatically change the results, to make a phylogenetic tree (with names of sequences) or to export as fasta (with names of sequences).

blast1.JPG (42 KB | )

Title: Re: Names
Post by Konstantin Okonechnikov on Mar 14th, 2011 at 12:34am
Below I will describe a typical workflow for phylogenetic analysis.

1) Use annotation tree viewer (it is situated under the sequence view) to check details of BLAST feature



2) Select sequences, which you would like to add to alignment, right click on them and then choose "Fetch sequences from remote database". The selected sequences will be downloaded into single Fasta file with name defined by ID (for example accession number).



3) Multifasta file will open automatically after sequences are downloaded. Convert it to multiple alignment format.




4) Align sequences using suitable algorithm.
MUSCLE, KAlign, T-Coffee and Clustal tools are availble.
Then build a phylogenetic tree (using built-in Phylip capabilities).



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