ABI data extraction utilities

John Barlow john_q_barlow at hotmail.com
Fri Apr 7 11:38:40 EST 2000


Hi:
I also used Chromas, but it was not updated for quite a long time and is a bit 
flaky.  The best program for viewing, printing, and extracting sequences from 
ABI data is the free program GeneStudio LE, available for download at 
http://www.genestudio.com.  GeneStudio LE will also show SCF files.  A simpler 
version without the viewer of chromatograms is also on that site.  It is called 
SeqVerter.

Another free program that will allow to do this (and much more) is BioEdit 
http://www.mbio.ncsu.edu/RNaseP/info/programs/BIOEDIT/bioedit.html.  I think 
that GeneStudio LE has a much better ABI chromatogram viewer than BioEdit and 
the interface is much more user friendly.

John




In article <8cgcsa$et7$1 at ssauraab-i-1.production.compuserve.com>, 
GysdeJongh at compuserve.com says...
>
>"Przemko Tylzanowski" <przemko at med.kuleuven.ac.be
>> wrote in message news:38EB475D.B546C7D3 at med.kuleuven.ac.be...
>>I use Chromas (the freeware version) and am very happy with it.
>> The thing is that sometimes I would like to see the raw data 
>>because the ABI sometimes miscalls the bases. Now, our lab 
>>is PC based and the only Mac is with ABI. So it would be 
>>much more convenient to look at the raw data on PC. I have
>>somewhere a hack for it but I thought perhaps someone 
>>managed a program to read not only
>>the processed data but also the real trace.
>>"Richard J. Dudley" wrote:
>>Have you tried Chromas?
>
>>http://www.technelysium.com.au/chromas.html
>>or BioEdit?
>
>>http://www.mbio.ncsu.edu/RNaseP/info/programs/BIOEDIT/bioedit.html
>
>Hi,
>there is a pc version for chromas which works very nice. 
>It lets you view , edit , save the ABI called bases. If you choose
>"export" in the "file" menue it will save the raw fluorescent data.
>
>Bioedit can do the same ; it will,however, not save the raw flu. data.
>
>I also tried exTRACE of Mark Berres. I found it very usefull as
>it extracts all the data , not only the raw fluorescense.
>(yes Richard , there is a lot more in the ABI file) It works
>perfectly in a dos window as he describes in this thread.
>
>-- 
>Gys
>
>
>
>






More information about the Bio-soft mailing list