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General Category >> Help and How-to >> How can I map reads to an existing mapping file?
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Message started by mora161 on Sep 4th, 2020 at 4:07am

Title: How can I map reads to an existing mapping file?
Post by mora161 on Sep 4th, 2020 at 4:07am
Hi!

I inherited a project and I only have the UGENE file (.ugenedb) which contain reads mapped to a genome. I want to know if there is a way to map new reads in that file. I can't find any way to do it. The alternative is mapping my new reads to the same genome in a different file, but his way I can't create a consensus sequence, which is the main point of the project.

Title: Re: How can I map reads to an existing mapping file?
Post by Dmitrii Sukhomlinov on Sep 4th, 2020 at 11:12pm
Ok, let's specify the question more clearly. What kind of alignment you have? Does is Sanger alignment? With chromatograms? If yes, I'm sorry to say, but there is no way to map new reads on it. The alignment is built one time and you cannot align new reads on it. If it is some other kind of alignment, please, specify it.

Title: Re: How can I map reads to an existing mapping file?
Post by mora161 on Sep 17th, 2020 at 10:09pm
It's a Sanger alignment with chromatograms so is a bummer that the alignment is built that way. Thanks for the reply.

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