UGENE Forum - Print Page

UGENE Forum
https://forum.ugene.net/forum/YaBB.pl General Category >> Help and How-to >> De-novo assembly of Sanger data, creating consensus with quality values using CAP3 https://forum.ugene.net/forum/YaBB.pl?num=1681784076 Message started by genomesss on Apr 18^th, 2023 at 9:14am

Title: De-novo assembly of Sanger data, creating consensus with quality values using CAP3
Post by genomesss on Apr 18^th, 2023 at 9:14am

Hi all,

I have Sanger sequencing data (ab1 files) which I would like to de-novo assemble into a consensus sequence. However, I would also like to obtain the quality values for the consensus as it is possible with the stand-alone program CAP3, however, when I use it within UGENE I cannot figure out how to obtain those quality values.

Any help would be appreciated!
Thanks!

Title: Re: De-novo assembly of Sanger data, creating consensus with quality values using CAP3
Post by Dmitrii Sukhomlinov on Apr 18^th, 2023 at 12:06pm

Hello,

Unfortunately, for now, UGENE do not support quality values, but we know about it and will try to add this feature in the future. CAP3 exists in UGENE (Tools -> Sanger data analysis -> Reads de novo assembly (with CAP3)) and uses quality values, but UGENE just do not show them.

Best regards,
Dmitrii Sukhomlinov,
The UGENE team.