There is a program called Phred that is able to read the .ab1 files and convert them into sequence files.
It can do this either without modifying the read so it appears "as is", or to discard bases that cannot be determined. In fact, I'm using Phred in a program to generate the raw sequence files, and the "phred" sequence files as well. -----Original Message----- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED]]On Behalf Of Schreiber, Mark Sent: Tuesday, August 13, 2002 7:01 PM To: David Atlan; [EMAIL PROTECTED] Subject: RE: [Biojava-l] ABI raw data files support? Hi - This could be your lucky day. There seems to have been a recent check in of a Class called ABI trace in org.biojava.bio.program.abi.ABITrace that has the ability to read ABI data. To get at this class you will need to checkout biojava-live from the CVS. Its marked as version 0.5 alpha so you may need to do some testing on it. - Mark > -----Original Message----- > From: David Atlan [mailto:[EMAIL PROTECTED]] > Sent: Wednesday, 14 August 2002 10:37 a.m. > To: [EMAIL PROTECTED] > Subject: [Biojava-l] ABI raw data files support? > > > Hi, > > I have been searching for a library, ideally in Java, that > helps me to read ABI (3100, 3700) raw data files (.ab1). I > went through the tutorial and the API, but could not find > anything. EMBOSS seems to have something in C, but as I said, > I am looking for Java. > > Is there something out there? > > Thanks a lot, > > David Atlan > PS: I just registered on the mailing list, so I hope I can > get the answer through it. > ______________________________________________________________ > ________________ > Keine Chance fur Viren! Mit WEB.DE FreeMail sind Sie auf der > sicheren Seite - Virenschutz inklusive! > http://freemail.web.de/?mc=021129 > > > _______________________________________________ > Biojava-l mailing list - [EMAIL PROTECTED] > http://biojava.org/mailman/listinfo/biojava-l > ======================================================================= Attention: The information contained in this message and/or attachments from AgResearch Limited is intended only for the persons or entities to which it is addressed and may contain confidential and/or privileged material. Any review, retransmission, dissemination or other use of, or taking of any action in reliance upon, this information by persons or entities other than the intended recipients is prohibited by AgResearch Limited. If you have received this message in error, please notify the sender immediately. ======================================================================= _______________________________________________ Biojava-l mailing list - [EMAIL PROTECTED] http://biojava.org/mailman/listinfo/biojava-l _______________________________________________ Biojava-l mailing list - [EMAIL PROTECTED] http://biojava.org/mailman/listinfo/biojava-l
