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<DIV><FONT face=Arial size=2>Peter:</FONT></DIV>
<DIV><FONT face=Arial size=2></FONT> </DIV>
<DIV><FONT face=Arial size=2>Sorry, our corporaton can not help you.
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<DIV><FONT face=Arial size=2>Our research in bioinformatics is on the
electrochemistry by which proteins transduce environmental chemical groups or
energy into information in living cells or multicellular organisms.</FONT></DIV>
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<DIV><FONT face=Arial size=2>Dale</FONT></DIV>
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<DIV style="FONT: 10pt arial">----- Original Message ----- </DIV>
<DIV
style="BACKGROUND: #e4e4e4; FONT: 10pt arial; font-color: black"><B>From:</B>
<A title=peter.groenen@home.nl href="mailto:peter.groenen@home.nl">Peter
Groenen</A> </DIV>
<DIV style="FONT: 10pt arial"><B>To:</B> <A
title=bio_bulletin_board@bioinformatics.org
href="mailto:bio_bulletin_board@bioinformatics.org">bio_bulletin_board@bioinformatics.org</A>
</DIV>
<DIV style="FONT: 10pt arial"><B>Sent:</B> Friday, June 25, 2004 5:27 PM</DIV>
<DIV style="FONT: 10pt arial"><B>Subject:</B> [BiO BB] Ka/Ks</DIV>
<DIV><BR></DIV>
<DIV><FONT face=Arial size=2>I am looking for a command line tool that can
handle protein alignments as input and aligns the corresponding transcripts. I
want to use it for Ka/Ks determination.</FONT></DIV>
<DIV><FONT face=Arial size=2>Secondly, I need something like a "sliding "
Ka/Ks determination to see if there is a difference within a protein when
looking at smaller segments. </FONT></DIV>
<DIV><FONT face=Arial size=2>I looked at SNAP, and also PAML but they are not
very straightforward in use, especially hte diffenret formats are giving me
trouble.</FONT></DIV>
<DIV><FONT face=Arial size=2>Any ideas?</FONT></DIV>
<DIV><FONT face=Arial size=2>Thanks in advance.</FONT></DIV>
<DIV><FONT face=Arial size=2>Peter</FONT></DIV></BLOCKQUOTE></BODY></HTML>