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<p class=MsoNormal>Dear all,<o:p></o:p></p>
<p class=MsoNormal><o:p> </o:p></p>
<p class=MsoNormal>I am wondering would it be nice to make a small addition to
the zscore() function in SeqinR, so that it computes a P-value for the Z-score?<o:p></o:p></p>
<p class=MsoNormal><o:p> </o:p></p>
<p class=MsoNormal>As far as I understand, this would involve adding a line to
calculate the P-value based on the Z-score (where zscore is the variable
holding the Z-score):<o:p></o:p></p>
<p class=MsoNormal>1 – pnorm(zscore, mean=1,sd=1)<o:p></o:p></p>
<p class=MsoNormal>Is this right?<o:p></o:p></p>
<p class=MsoNormal><o:p> </o:p></p>
<p class=MsoNormal>Would you consider adding this to the zscore() function? I
think it would be nice if it gave a P-value.<o:p></o:p></p>
<p class=MsoNormal><o:p> </o:p></p>
<p class=MsoNormal>Also, I am wondering would it be nice to extend the rho()
and zscore() functions so that they work for word sizes of greater than 2 ?<o:p></o:p></p>
<p class=MsoNormal>I think this would be easy to do for the rho() function. I
can provide some suggestion for code if you are interested.<o:p></o:p></p>
<p class=MsoNormal>For zscore(), I think the easiest way would be to calculate
a P-value would be to use simulated sequences to calculate the expected
distribution of Z-scores according to some null model (eg. a multinomial model
for DNA).<o:p></o:p></p>
<p class=MsoNormal>What do you think? Would you like me to send my suggestion
for some code? I have written part of it already. <o:p></o:p></p>
<p class=MsoNormal><o:p> </o:p></p>
<p class=MsoNormal>Regards,<o:p></o:p></p>
<p class=MsoNormal>Avril<o:p></o:p></p>
<p class=MsoNormal><o:p> </o:p></p>
<p class=MsoNormal>Avril Coghlan<o:p></o:p></p>
<p class=MsoNormal>University College Cork, Ireland<o:p></o:p></p>
<p class=MsoNormal><o:p> </o:p></p>
<p class=MsoNormal><o:p> </o:p></p>
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