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9 <property name="aboutmenutext">About Mussagl Manual</property>
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15 title="Mussagl Manual">
17 <section ref="./mussagl_manual.html#contents" title="Contents" />
19 <section ref="./mussagl_manual.html#introduction" title="Introduction">
20 <section ref="./mussagl_manual.html#what-is-mussagl" title="What is Mussagl?">
21 <keyword ref="./chap1/section1.html#foo">foo</keyword>
22 <keyword ref="./chap1/section1.html#bla">bla</keyword>
23 <section ref="./mussagl_manual.html#mussa-python-pmw-prototype" title="Mussa Python/PMW Prototype"/>
24 <section ref="./mussagl_manual.html#mussa-c-fltk" title="Mussa C++/FLTK"/>
25 <section ref="./mussagl_manual.html#mussa-c-qt-opengl" title="Mussagl C++/Qt/OpenGL"/>
29 <section ref="./mussagl_manual.html#getting-mussagl" title="Getting Mussagl">
30 <section ref="./mussagl_manual.html#license" title="License"/>
31 <section ref="./mussagl_manual.html#platforms" title="Platforms"/>
32 <section ref="./mussagl_manual.html#download" title="Download"/>
34 <section ref="./mussagl_manual.html#install" title="Install">
35 <section ref="./mussagl_manual.html#mac-os-x" title="Mac OS X"/>
36 <section ref="./mussagl_manual.html#windows-xp" title="Windows XP"/>
37 <section ref="./mussagl_manual.html#linux" title="Linux"/>
38 <section ref="./mussagl_manual.html#build-from-source" title="Build from Source"/>
43 <section ref="./mussagl_manual.html#using-mussagl" title="Using Mussagl">
45 <section ref="./mussagl_manual.html#launch-mussagl" title="Launch Mussagl"/>
47 <section ref="./mussagl_manual.html#create-load-analysis" title="Create/Load Analysis">
48 <section ref="./mussagl_manual.html#create-a-new-analysis" title="Create a new analysis"/>
49 <section ref="./mussagl_manual.html#load-a-mussa-parameter-file" title="Load a mussa parameter file"/>
50 <section ref="./mussagl_manual.html#load-an-analysis" title="Load an analysis"/>
53 <section ref="./mussagl_manual.html#main-window" title="Main Window">
54 <section ref="./mussagl_manual.html#overview" title="Overview"/>
55 <section ref="./mussagl_manual.html#dna-sequence-black-bars" title="DNA Sequence (black bars)"/>
56 <section ref="./mussagl_manual.html#annotation" title="Annotation"/>
57 <section ref="./mussagl_manual.html#motif" title="Motif"/>
58 <section ref="./mussagl_manual.html#conservation-tracks" title="Conservation Tracks"/>
59 <section ref="./mussagl_manual.html#motif-toggle" title="Motif Toggle"/>
60 <section ref="./mussagl_manual.html#zoom-factor" title="Zoom Factor"/>
61 <section ref="./mussagl_manual.html#dynamic-threshold" title="Dynamic Threshold"/>
62 <section ref="./mussagl_manual.html#sequence-information-bar" title="Sequence Information Bar"/>
63 <section ref="./mussagl_manual.html#sequence-scroll-bar" title="Sequence Scroll Bar"/>
66 <section ref="./mussagl_manual.html#annotations-motifs" title="Annotations / Motifs">
67 <section ref="./mussagl_manual.html#annotations" title="Annotations"/>
68 <section ref="./mussagl_manual.html#motifs" title="Motifs">
69 <section ref="./mussagl_manual.html#load-motifs-from-file" title="Load motifs from File"/>
70 <section ref="./mussagl_manual.html#save-motifs-to-file" title="Save Motifs to File"/>
71 <section ref="./mussagl_manual.html#motif-dialog" title="Motif Dialog"/>
76 <section ref="./mussagl_manual.html#view-mussa-alignments" title="View Mussa Alignments"/>
77 <section ref="./mussagl_manual.html#saving-to-an-image" title="Saving to an Image"/>
79 <section ref="./mussagl_manual.html#detailed-information" title="Detailed Information">
80 <section ref="./mussagl_manual.html#threshold" title="Threshold"/>
81 <section ref="./mussagl_manual.html#window-size" title="Window Size"/>
82 <section ref="./mussagl_manual.html#sequences" title="Sequences"/>
85 <section ref="./mussagl_manual.html#mussa-file-formats" title="Mussa File Formats">
86 <section ref="./mussagl_manual.html#parameter-file-format" title="Parameter File Format"/>
87 <section ref="./mussagl_manual.html#annotation-file-format" title="Annotation File Format"/>
88 <section ref="./mussagl_manual.html#motif-file-format" title="Motif File Format"/>
89 <section ref="./mussagl_manual.html#iupac-necleotide-code" title="IUPAC Nucleotide Code"/>