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I recently started working on a function for <A HREF="https://github.com/TheChymera/TransGenoHit/blob/master/pcr.py">in silico PCR</A>. Basically this identifies potential(ly unwanted) amplicons.<BR>
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I have implemented some basic paralellization for the function, and it can currently PCR against the whole mouse genome in about 20min on my laptop. I guess I could make it even faster by not BLASTing both primers against the whole genome, but just BLASTing one, and then BLASTing the second downstream of the first (the function takes a maximum amplicon length argument).<BR>
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Do you think this could be a worthwhile thing to include in biopython?<BR>
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Best Regards,<BR>
Christian<BR>
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-- <BR>
<B><FONT COLOR="#969696">Horea Christian, M.Sc.</FONT></B><BR>
<FONT SIZE="2"><FONT COLOR="#969696">Doctoral Researcher</FONT></FONT><BR>
<FONT SIZE="2"><FONT COLOR="#969696">Institute for Biomedical Engineering</FONT></FONT><BR>
<FONT SIZE="2"><FONT COLOR="#969696">Neuroscience Center Zurich</FONT></FONT><BR>
<B><FONT SIZE="2"><FONT COLOR="#969696">ETH Zurich and UZH</FONT></FONT></B><BR>
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<FONT COLOR="#969696">Email, <A HREF="mailto:horea.christ@gmail.com">horea.christ@gmail.com</A></FONT><BR>
<FONT COLOR="#969696">Online portal, <A HREF="http://chymera.eu/">chymera.eu</A></FONT><BR>
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