Sanger dye blobs correction
0
0
Entering edit mode
8.9 years ago

Hi

Is there any tool which can recognize and replace dye blobs with N in Sanger ABI files?

I haven't worked with Sanger reads yet, maybe it is not such a problem not to do anything with them, will it make problems while mapping?

dye-blobs sanger quality-control • 2.1k views
ADD COMMENT
0
Entering edit mode

Just in case anyone reads this question years later, the way to solve this problem is to rebasecall the .ab1 file (you just need to load it back into Sequence Analysis or ask your sequencing facility to do it for you) and up the N base threshold value. Regions of dyeblobs have low quality scores and by increasing the N base threshold you will turn the low quality bases into N.

ADD REPLY

Login before adding your answer.

Traffic: 1514 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6