ABI Support software for automated sequencing

George Mayhew mayhew at midgaard.genetics.wisc.edu
Wed Nov 9 19:39:18 EST 1994


Hi folks,

I am setting up a large ABI facility for genome sequencing.  We have a very
good existing set-up for radioactive sequencing using DNAstar programs and some
handy home-made database management software.  However, we are a trifle lacking
in the ABI support.  Plans are for several more machines, so I need to evaluate
software now.

One of our biggest problems concerning the ABI output are variable regions of
non-homologous "junk" at the 3' and 5' ends of the sequence files.  Our current
assmebly programs do not like this fuzzy region and it has proven difficult to
construct contigs from these files.

I was wondering if anyone has tried the ABI Macintosh program packages: INHERIT
and SEQUENCE NAVIGATOR.  Has ABI addressed what this common problem of "junk"
sequence in these programs?  How about database management of sequencing
projects?

Any insights, opinions, experiences, etc. would be extrememly helpful
Especially any good experiences, since I'll have to take this up with the
"big-boss" and it would be helpful to have ammunition first! ;-)

Thanks a bunch!
George

---
__"People are DNA's way of making more DNA." (Edward O. Wilson, 1975)
\  \ / \  \ / \  \ / \  \ /   George Mayhew   \ / \  \ / \  \ / \  \ /
/\  \  /\  \  /\  \  /\  UW Genetics Laboratory\  /\  \  /\  \  /\  \
  \__\/  \__\/  \__\/  \mayhew at genetics.wisc.edu\/  \__\/  \__\/  \__\
  
      University of Wisconsin - Madison, Laboratory of Genetics,
   College of Agricultural and Life Sciences and the Medical School
                445 Henry Mall, Madison, WI 53706
             Phone: 608-262-2534    Fax: 608-263-7459




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