How to simulate Sanger AB1 files
0
1
Entering edit mode
3.5 years ago

Making a temporary transition for NGS sequencing back to Sanger and need a little help with simulating test files. We are working on validating software for variant calling from Sanger sequencing data and are looking to simulate AB1 files. We are hoping to introduce known variants and validate both the software and the potential users. Are there any tools available for accurately Simulating AB1 files from a Fasta reference sequence. What considerations should be made for ensuring the most accurate simulation? Command Line options are welcome. Thanks in advance.

sanger ab1 sequencing validation • 2.0k views
ADD COMMENT
0
Entering edit mode

We have had discussions about AB1 files on biostars in past. Writing AB1 files is likely not trivial (format specification) and I don't immediately recollect package/software that can create those files.

An old thread may be of interest: Is there a way to access the data stored in a .ab1 file ?

ADD REPLY
0
Entering edit mode

From bitter personal experience the ABI file format specification document is not accurate or complete.

ADD REPLY
0
Entering edit mode

I don't know of any publicly available software that can generate .ab1 files, but we have developed one which we use in house. It might be best if you are still interested in this question to get in contact with me directly.

ADD REPLY

Login before adding your answer.

Traffic: 2461 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