Editview alternative

James Bonfield jkb at arran.mrc-lmb.cam.ac.uk
Wed Aug 23 11:55:00 EST 2000


In <8nsevv$i7o$1 at mercury.hgmp.mrc.ac.uk> Perry d'Obrenan <perry.dobrenan at ualberta.ca> writes:

> Does anyone know of a Macintosh application which can read Beckman
> CEQ2000.scf files in the same way that ABI's Editview allows you to see
> the electropherogram, run parameters, sequence text, etc.etc.

I've looked at a Beckman file and it's claims at being SCF are stretching
things a bit far.

It did indeed have a valid SCF format in the strictest of senses, but in a
completely useless way. dump_scf revealed the header as follows:

[Header]
779314022       # magic_number
0               # samples
0               # samples_offset
0               # bases
0               # bases_left_clip
0               # bases_right_clip
0               # bases_offset
6               # comments_size
128             # comments_offset
2.10            # version
2               # sample_size
2               # code_set
171618          # private_size
134             # private_offset

Ie there's no trace or base data at all - it's all stored in the private
block.

I don't know whether this is typical of other Beckman files, but if so then I
guess we can say that no program is likely to be able to read Beckman "scf"
files unless it has inside knowledge of the private data format.

      James
--
James Bonfield (jkb at mrc-lmb.cam.ac.uk)   Tel: 01223 402499   Fax: 01223 213556
Medical Research Council - Laboratory of Molecular Biology,
Hills Road, Cambridge, CB2 2QH, England.
Also see Staden Package WWW site at http://www.mrc-lmb.cam.ac.uk/pubseq/


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