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<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN">
<HTML><HEAD><TITLE>Man page of BEADS</TITLE>
</HEAD><BODY>
<H1>BEADS</H1>
Section: User Commands (1)<BR>Updated: 2009 Dec 5<BR><A HREF="#index">Index</A>
<A HREF="/cgi-bin/man/man2html">Return to Main Contents</A><HR>
<A NAME="lbAB"> </A>
<H2>NAME</H2>
beads - 2D gel electrophoresis spot detection
<P>
<A NAME="lbAC"> </A>
<H2>SYNOPSIS</H2>
<B>beads</B>
[<I>--inverse --steps -p parameter file</I>]... <I>-i INPUT -o OUTPUT
<BR>
</I><A NAME="lbAD"> </A>
<H2>DESCRIPTION</H2>
<P>
detect and quantify spots in INPUT gel image file.
<DL COMPACT>
<DT><B>-i</B><DD>
path to the gel image input file
<DT><B>-o</B><DD>
path to the output file
<DT><B>-p</B>, <B>--param</B><DD>
path to the parameter file
<DT><B>--inverse</B><DD>
inverse pixel intensity in the source gel image, must be "true" or "false" ("true" by default)
<DT><B>--steps</B><DD>
save each image computed by beads at each step of the process into TIFF files. This option can be used to tune parameter file.
<BR>
</DL>
<A NAME="lbAE"> </A>
<H2>OUTPUT</H2>
beads produces several files format as output: xml, txt, jpg, tif and svg. To choose the output file format, just write the corresponding extension in the output filename OUTPUT
<BR>
<A NAME="lbAF"> </A>
<H2>AUTHORS</H2>
beads was written by Michel Zivy <<A HREF="mailto:michel.zivy@moulon.inra.fr">michel.zivy@moulon.inra.fr</A>> and Olivier Langella <<A HREF="mailto:olivier.langella@moulon.inra.fr">olivier.langella@moulon.inra.fr</A>>.
<BR>
<A NAME="lbAG"> </A>
<H2>COPYRIGHT</H2>
Copyright CeCILL
<BR>
<A NAME="lbAH"> </A>
<H2>SEE ALSO</H2>
The beads homepage :
<BR>
<A HREF="http://pappso.inra.fr/bioinfo/beads/index.php">http://pappso.inra.fr/bioinfo/beads/index.php</A>
<P>
<HR>
<A NAME="index"> </A><H2>Index</H2>
<DL>
<DT><A HREF="#lbAB">NAME</A><DD>
<DT><A HREF="#lbAC">SYNOPSIS</A><DD>
<DT><A HREF="#lbAD">DESCRIPTION</A><DD>
<DT><A HREF="#lbAE">OUTPUT</A><DD>
<DT><A HREF="#lbAF">AUTHORS</A><DD>
<DT><A HREF="#lbAG">COPYRIGHT</A><DD>
<DT><A HREF="#lbAH">SEE ALSO</A><DD>
</DL>
<HR>
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Time: 14:36:04 GMT, December 08, 2009
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