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<p class="MsoPlainText">Hi,<span style="mso-spacerun:yes"> </span>I just downloaded
<span class="SpellE">imageJ</span> to check it out.<span style="mso-spacerun:yes">
</span>I have a typhoon <span class="SpellE">phosphorimager</span> and sometimes run 64 lane gels that are too complex for the latest GE software to manage.<span style="mso-spacerun:yes">
</span>As such, I still analyze these files with an old computer running <span class="SpellE">
imagequant</span> 5.2.<span style="mso-spacerun:yes"> </span>This software will not run on a box that has greater than 512 MB RAM.<span style="mso-spacerun:yes">
</span>Since that box is about 10 years old, I thought I would see how <span class="SpellE">
ImageJ</span> could handle.<o:p></o:p></p>
<p class="MsoPlainText"><o:p> </o:p></p>
<p class="MsoPlainText">So since the GE/Former <span class="SpellE">Amersham</span>/Former Molecular Dynamics .gel file format is based on the tiff standard,
<span class="SpellE">ImageJ</span> will read .gel files because they are tiff files.<span style="mso-spacerun:yes">
</span>Unfortunately these instruments (Typhoon and Storm) transform the original pixel values by taking their square root and scaling them before
<o:p></o:p></p>
<p class="MsoPlainText">saving them to a .gel file.<span style="mso-spacerun:yes">
</span>When <span class="SpellE">imagej</span> opens a .gel file, it doesn't reverse this transformation making the images appear muted and unsuitable for quantification.<span style="mso-spacerun:yes">
</span>I posted on the <span class="SpellE">ImageJ</span> list and they said “You could try the Bio-Formats
<span class="SpellE">plugin</span>, which is supposed to be able to open .gel files.”<span style="mso-spacerun:yes">
</span>Can anyone please explain to me if this is true, how does it work (is it an actual
<span class="SpellE">plugin</span> to be installed in to <span class="SpellE">ImageJ</span> or a file converter?<span style="mso-spacerun:yes">
</span>In either case, does this compromise the <span class="SpellE">quantitation</span> (i.e. is it lossless)<o:p></o:p></p>
<p class="MsoPlainText"><o:p> </o:p></p>
<p class="MsoPlainText">Best regards,<span style="mso-spacerun:yes"> </span>Pete<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><b style="mso-bidi-font-weight:normal"><span style="font-size:10.0pt;mso-bidi-font-size:11.0pt;font-family:"Arial","sans-serif";mso-fareast-font-family:"Times New Roman";color:black;mso-no-proof:yes">Peter Gerondelis, Ph.D.<o:p></o:p></span></b></p>
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