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Generating Web BLAST output from local BLAST

Is it possible to generate the web page for blast results from a local blast? I find all the command line blast output to be difficult to read, particularly for what I am doing.

blast
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updated by rikki.frederiksen • rikki.frederiksen • written by dylan.lawrence • dylan.lawrence

Dear community,

It's an old tread, but apparent still relevant. I used the flag option and created a html file (filename.html). I can open this file in the brower, but is there a way to open it in the BLAST web page, so that would have a more visual presentation of my data? Especially, I am to use the "browser" function on the web page to see the neigboring genes of my blast hits.

Best, Rikki

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written by rikki.frederiksen • rikki.frederiksen

If you are doing the blast at NCBI then I recall that the links were clickable i.e. they will take you out to relevant accession at NCBI. If you are thinking of having this sort of thing with a local database then it is not going to be possible automatically. You will need to grab the accession numbers from your search and look them up at NCBI yourself.

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written by GenoMax GenoMax

2 answers

option 1) use the html output: https://www.ncbi.nlm.nih.gov/books/NBK279684/

html flag N/A Produce HTML output

option 2): generate a xml output and then convert to html using xslt. see Blast Stylesheet

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written by Pierre Lindenbaum Pierre Lindenbaum

I did not know there was an html flag option. Thank you!

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written by dylan.lawrence • dylan.lawrence

Shameless plug: You can also use http://sequenceserver.com to have something with more visualization flexibility

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written by Yannick Wurm Yannick Wurm

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