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Old 04-27-2014, 10:17 PM   #1
Location: USA

Join Date: Nov 2012
Posts: 51
Default counting the details of a .SFF file

Hii All,

Is there a way/utility to get the details of any .SFF file?? I want to
calculate the total no of reads, bases, and Q20 bases in my Ion .SFF file.
I mean utilities which are there for FASTQ..i am very much new to this..

thanx for any help


chayan is offline   Reply With Quote
Old 04-27-2014, 10:47 PM   #2
Senior Member
Location: Berlin, DE

Join Date: May 2008
Posts: 628

Convert the file to fastq (e.g. with or any other tool). Then just use the desired tools for fastq.

sklages is offline   Reply With Quote
Old 04-28-2014, 09:53 AM   #3
Peter (Biopython etc)
Location: Dundee, Scotland, UK

Join Date: Jul 2009
Posts: 1,543

See also where sffinfo and other tools are suggested.
maubp is offline   Reply With Quote

fastqc, fastx-toolkit, iontorrnet, sff_extract

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