Sanger dye blobs correction
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?
• 2,542 views
•
link
updated
by
Ram
•
written
by
marina-orlova
•
written
by
marina-orlova
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
bcl2fastq
written by kilcdincer •
-
Problem with ONT sequencing pipeline. Probably in the Samtools part
written by Emilio •
-
Can sangeranalyseR be changed to read SCF files?
written by Pedro A D P •
-
StringTie values do not match mapped reads in Geneious
written by JirMan •
-
sRNA data mapping to Rfam to find non coding RNA
written by vikasdahiya03 •
-
very-sensitive-local bowtie2 or bwa_mem
written by Illusion •
-
looking for a free command-line based quality score tool for sanger sequencing
written by hfan22 •
-
kissplice on TWAS analysis
written by wangdp123
-
Splitting fastq from stdin into multiple files ?
written by flyamer •
-
Quality control ChiP-Seq
written by marina-orlova
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.