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<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class="">Dear EM community,</span></div>
<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class="">We are excited to announce the release of the latest version of our
<b class="">SPHIRE </b> software suite (SPHIRE Beta Patch 1) (co-distributed with EMAN 2.2 and SPARX) , which is now available from our website: </span></div>
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<span style="text-decoration: underline ; font-kerning: none" class=""><a href="https://urldefense.proofpoint.com/v2/url?u=http-3A__sphire.mpg.de&d=DwMGaQ&c=6vgNTiRn9_pqCD9hKx9JgXN1VapJQ8JVoF8oWH1AgfQ&r=vDDf9rsFxPMXm8JgJa6hc4B9V4qKr7wftnDkLIRdshI&m=33GhWmUzxWDoNEEn95TH3nVcJvAy4a6HebLeBCyb3z4&s=04Ujzq5G-7aHzNO3rcVP6wb1Ky6TLXcYMuYf4-aaFC0&e=" class="">http://sphire.mpg.de</a></span></div>
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<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class="">Main new components and updates:</span></div>
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<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class=""><b class="">- ISAC2 – Rapid and stable 2D Clustering</b></span></div>
<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class="">We optimized the popular ISAC algorithm for 2D Clustering (Yang et al., Structure, 2012). </span>ISAC yields now validated 2D class averages
<b class="">> 10-15x faster </b>than before.</div>
<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class="">In addition, the new Beautifier tool allows further refinement and sharpening of the ISAC 2D class averages in order to reveal high-resolution
features in 2D.</span></div>
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<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class=""><b class="">- MERIDIEN –</b>
<b class="">Rapid ML 3D Refinement</b></span></div>
<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class="">We introduced the polar coordinates methodology (Penczek et al., 1992) and optimized the parallelization of the program to speed up the structure
refinement, reduce the memory requirements and enable calculation on single nodes.</span></div>
<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class="">MERIDIEN is now
<b class="">> 10-15x faster</b> than the previous version.</span></div>
<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class="">Cryo-EM structure determination with SPHIRE is now possible within a few days on small clusters
<b class="">and desktop machines</b>.</span></div>
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<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class=""><b class="">- RSORT3D – Reproducible 3D sorting</b></span></div>
<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class="">We re-implemented and improved the 3D sorting procedure and methodology. The updated RSORT3D is
<b class="">3-4x faster </b>and capable to run on desktop machines. More importantly, it produced better results for several high resolution projects in our lab.</span></div>
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<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class=""><b class="">- Icosahedral, Tetrahedral and Octahedral Symmetry</b></span></div>
<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class="">Refinement of particles with icosahedral, tetrahedral, and octahedral symmetries is now supported.</span></div>
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<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class=""><b class="">- Easy installation</b></span></div>
<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class="">The release of SPHIRE Beta Patch 1 is synchronized with the release of EMAN 2.2. The new Anaconda Installer allows a fast and smooth co-installation
of both programs. <span style="font-family: Helvetica;" class="">At the moment we only support CentOS, but we work hard on developing a MacOS Installer for the upcoming stable release.
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<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class="">For any issues and inquiries, the SPHIRE team is accessible almost 24/7 via the
<a href="https://urldefense.proofpoint.com/v2/url?u=https-3A__listserv.gwdg.de_mailman_listinfo_sphire&d=DwMGaQ&c=6vgNTiRn9_pqCD9hKx9JgXN1VapJQ8JVoF8oWH1AgfQ&r=vDDf9rsFxPMXm8JgJa6hc4B9V4qKr7wftnDkLIRdshI&m=33GhWmUzxWDoNEEn95TH3nVcJvAy4a6HebLeBCyb3z4&s=yUJ84BmoBfUZa5j2o-lur1OlwjeDwOroamLEgH_Ic-o&e=" class="">
<span style="-webkit-font-kerning: none;" class="">mailing list.</span></a></span></div>
<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class="">We sincerely hope that the updated SPHIRE Beta Patch 1 version will meet your expectations and be a helpful advance in high-resolution cryo-EM.</span></div>
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<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class="">Your SPHIRE development team</span></div>
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<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class="">Toshio, Markus, Felipe, Thorsten, Michael, Christos, and Stefan – MPI Dortmund</span></div>
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<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class="">Zhong and Pawel - UTH Texas</span></div>
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<div style="margin: 0px; line-height: normal; font-family: Arial;" class=""><span style="font-kerning: none" class=""><span style="color: rgb(79, 129, 189); font-family: 'Helvetica Neue';" class="">(Follow us on Twitter: </span><a href="https://twitter.com/SPHIRE_Package" class="" style="font-family: 'Helvetica Neue';">https://twitter.com/SPHIRE_Package</a><span style="color: rgb(79, 129, 189); font-family: 'Helvetica Neue';" class="">)</span></span></div>
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Stefan Raunser, Ph.D.<br class="">
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Director, Department of Structural Biochemistry</div>
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<span class="" style="text-align: -webkit-auto;">Max Planck Institute of Molecular Physiology</span><br class="">
Otto-Hahn-Str. 11<br class="">
44227 Dortmund, Germany<br class="">
tel: +49-231-133-2300<br class="">
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and<br class="">
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Adjunct Professor, <span class="" style="text-align: -webkit-auto;">Faculty of Chemistry and </span><span class="" style="text-align: -webkit-auto;">Chemical Biology </span></div>
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Technical University Dortmund</div>
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Honorary Professor, Centre for Medical Biotechnology, Faculty of Biology</div>
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University Duisburg-Essen</div>
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