Using sff tools to Extract Read Subsets

[kmcarr]

No, the -t option is used for changing trim point information stored in the file, not for extracting specific reads.

[Xterra]

How about fnafile?

Could someone please explain me how to use -t option with fnafile? I mean if I use -i accno 1-200, wouldn't I be able to 'extract' the reads that are 150 bases long?

[kmcarr]

You can't do this with sfftools directly. You can use sfffile to select a subset of reads from an input SFF file by using the -i option to pass a file containing a list of accession number to include in the output. Of course you will have to use some other tools to first create the list of accession numbers for the reads which match your criteria, whatever they may be.

(ETA: Oh, Sven beat me to it.)

[sklages]

This is not directly possible with sfftools. You'll probably need to work on fasta files.

cheers,
Sven

[Xterra]

How can I extract a subset of reads (longer than 150 bases but shorter than 200) from a sequencing Run using the sfftools. I think this can be accomplished using either sffinfo or fnafile (-t) but I just cannot get it to work.
Any help will be very much appreciated.