On Thursday, December 12, 2002, at 01:23 AM, andy law (RI) wrote:
David,
Staden is what you want/need. Free to academics. Home page is at http://www.mrc-lmb.cam.ac.uk/pubseq. Also a Mac OSX version
HTH
Andy
Dr. Andy Law
--------------------
Head of Bioinformatics - Roslin Institute
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-----Original Message----- From: David Orlovich [mailto:[EMAIL PROTECTED]] Sent: 10 December 2002 20:18 To: [EMAIL PROTECTED] Subject: [Fink-users] DNA sequence viewerHello Fink users. I'm writing to ask if anyone knows of open source software available for MacOS/X11 that allows the user to view, manipulate and edit electropherograms from an ABI DNA sequencer. Specifically, what I need is an alternative to proprietary software like Genecodes' Sequencher or ABI's AutoAssembler. There are freeware programs like ABI's Editview, that allow the visualisation of single electropherograms, but I'm been unable to find free software that will allow the user to assemble and edit contiguous sequences (contigs). Typically, most users of DNA sequencers would sequence forward and reverse strands and then assemble the strands to form a consensus sequence, which is then cut and pasted into a text file in FASTA format for subsequent processing (multiple alignment etc). I've had a bit of a look at some packages available through Fink, notably Emboss, but this doesn't do what I've described above. Any help would be much appreciated. I think there would be an overwhelming demand for such an open source program since most of the downstream processing can be done for free by quite good software - I just can't believe that people without access to commercial software resort to editing electropherograms by hand from printouts of the ABI files to get the sequences in the first place. Any thoughts, suggestions, comments? Cheers, David Orlovich. ------------------------------------------------------- This sf.net email is sponsored by: With Great Power, Comes Great Responsibility Learn to use your power at OSDN's High Performance Computing Channel http://hpc.devchannel.org/ _______________________________________________ Fink-users mailing list [EMAIL PROTECTED] https://lists.sourceforge.net/lists/listinfo/fink-users
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