sff extract

[dina]

Hi
How can I extract sff files? only in linux or windows is possible too?

[rglover]

http://bioinf.comav.upv.es/sff_extract/

This program will do the job. It works on Windows and linux so long as you have python installed.

[bio-x]

you can try:

Usage: sffinfo [options...] [- | sfffile] [accno...]
Options:
-a or -accno Output just the accessions
-s or -seq Output just the sequences
-q or -qual Output just the quality scores
-f or -flow Output just the flowgrams
-t or -tab Output the seq/qual/flow as tab-delimited lines
-n or -notrim Output the untrimmed sequence or quality scores
-m or -mft Output the manifest text

[maubp]

bio-x is suggesting using the Roche tool sffinfo which comes with the "Newbler" package. Note that this is Linux only. See also getting Newbler.