\BOOKMARK [1][-]{section.1}{Foreword}{}% 1
\BOOKMARK [2][-]{subsection.1.1}{Introduction}{section.1}% 2
\BOOKMARK [3][-]{subsubsection.1.1.1}{Background}{subsection.1.1}% 3
\BOOKMARK [3][-]{subsubsection.1.1.2}{What is Open Source?}{subsection.1.1}% 4
\BOOKMARK [2][-]{subsection.1.2}{Requirements}{section.1}% 5
\BOOKMARK [2][-]{subsection.1.3}{Platform specific notes}{section.1}% 6
\BOOKMARK [2][-]{subsection.1.4}{Getting help}{section.1}% 7
\BOOKMARK [2][-]{subsection.1.5}{Who wrote this program?}{section.1}% 8
\BOOKMARK [2][-]{subsection.1.6}{Alternate documentation}{section.1}% 9
\BOOKMARK [2][-]{subsection.1.7}{Helping out}{section.1}% 10
\BOOKMARK [1][-]{section.2}{Basics}{}% 11
\BOOKMARK [2][-]{subsection.2.1}{Getting started}{section.2}% 12
\BOOKMARK [3][-]{subsubsection.2.1.1}{Licence}{subsection.2.1}% 13
\BOOKMARK [3][-]{subsubsection.2.1.2}{Installing the program}{subsection.2.1}% 14
\BOOKMARK [2][-]{subsection.2.2}{Understanding the interface}{section.2}% 15
\BOOKMARK [3][-]{subsubsection.2.2.1}{The Filter Tree}{subsection.2.2}% 16
\BOOKMARK [3][-]{subsubsection.2.2.2}{Properties}{subsection.2.2}% 17
\BOOKMARK [3][-]{subsubsection.2.2.3}{The 3D View}{subsection.2.2}% 18
\BOOKMARK [3][-]{subsubsection.2.2.4}{Plot area}{subsection.2.2}% 19
\BOOKMARK [3][-]{subsubsection.2.2.5}{Console}{subsection.2.2}% 20
\BOOKMARK [3][-]{subsubsection.2.2.6}{Tools panel}{subsection.2.2}% 21
\BOOKMARK [2][-]{subsection.2.3}{Usage fundamentals}{section.2}% 22
\BOOKMARK [1][-]{section.3}{Quick start}{}% 23
\BOOKMARK [2][-]{subsection.3.1}{Loading data}{section.3}% 24
\BOOKMARK [2][-]{subsection.3.2}{Loading an analysis}{section.3}% 25
\BOOKMARK [2][-]{subsection.3.3}{Ranging}{section.3}% 26
\BOOKMARK [2][-]{subsection.3.4}{Spectrum}{section.3}% 27
\BOOKMARK [2][-]{subsection.3.5}{Composition profiles}{section.3}% 28
\BOOKMARK [2][-]{subsection.3.6}{Counting Points and measuring volume}{section.3}% 29
\BOOKMARK [2][-]{subsection.3.7}{Concentration surface and slices}{section.3}% 30
\BOOKMARK [1][-]{section.4}{Understanding the program}{}% 31
\BOOKMARK [2][-]{subsection.4.1}{Filters}{section.4}% 32
\BOOKMARK [2][-]{subsection.4.2}{Trees}{section.4}% 33
\BOOKMARK [2][-]{subsection.4.3}{Stashes}{section.4}% 34
\BOOKMARK [2][-]{subsection.4.4}{Plots}{section.4}% 35
\BOOKMARK [2][-]{subsection.4.5}{Cameras}{section.4}% 36
\BOOKMARK [2][-]{subsection.4.6}{Effects}{section.4}% 37
\BOOKMARK [2][-]{subsection.4.7}{Program actions}{section.4}% 38
\BOOKMARK [3][-]{subsubsection.4.7.1}{Save}{subsection.4.7}% 39
\BOOKMARK [3][-]{subsubsection.4.7.2}{Undo}{subsection.4.7}% 40
\BOOKMARK [3][-]{subsubsection.4.7.3}{Raw Data}{subsection.4.7}% 41
\BOOKMARK [3][-]{subsubsection.4.7.4}{Export Menu}{subsection.4.7}% 42
\BOOKMARK [3][-]{subsubsection.4.7.5}{Ranging dialog}{subsection.4.7}% 43
\BOOKMARK [3][-]{subsubsection.4.7.6}{Autosave}{subsection.4.7}% 44
\BOOKMARK [3][-]{subsubsection.4.7.7}{Export Animation}{subsection.4.7}% 45
\BOOKMARK [1][-]{section.5}{Detailed Reference}{}% 46
\BOOKMARK [2][-]{subsection.5.1}{Data types}{section.5}% 47
\BOOKMARK [3][-]{subsubsection.5.1.1}{Ions}{subsection.5.1}% 48
\BOOKMARK [3][-]{subsubsection.5.1.2}{Plots}{subsection.5.1}% 49
\BOOKMARK [3][-]{subsubsection.5.1.3}{Range}{subsection.5.1}% 50
\BOOKMARK [3][-]{subsubsection.5.1.4}{Voxels}{subsection.5.1}% 51
\BOOKMARK [3][-]{subsubsection.5.1.5}{Drawables}{subsection.5.1}% 52
\BOOKMARK [2][-]{subsection.5.2}{Filters}{section.5}% 53
\BOOKMARK [3][-]{subsubsection.5.2.1}{Data load}{subsection.5.2}% 54
\BOOKMARK [3][-]{subsubsection.5.2.2}{Voxel Load}{subsection.5.2}% 55
\BOOKMARK [3][-]{subsubsection.5.2.3}{Downsampling}{subsection.5.2}% 56
\BOOKMARK [3][-]{subsubsection.5.2.4}{Ion Information}{subsection.5.2}% 57
\BOOKMARK [3][-]{subsubsection.5.2.5}{Ranging}{subsection.5.2}% 58
\BOOKMARK [3][-]{subsubsection.5.2.6}{Bounding Box}{subsection.5.2}% 59
\BOOKMARK [3][-]{subsubsection.5.2.7}{Clipping}{subsection.5.2}% 60
\BOOKMARK [3][-]{subsubsection.5.2.8}{Spectrum}{subsection.5.2}% 61
\BOOKMARK [3][-]{subsubsection.5.2.9}{Profile}{subsection.5.2}% 62
\BOOKMARK [3][-]{subsubsection.5.2.10}{Spatial Analysis}{subsection.5.2}% 63
\BOOKMARK [3][-]{subsubsection.5.2.11}{Concentration Filtering : }{subsection.5.2}% 64
\BOOKMARK [3][-]{subsubsection.5.2.12}{Clustering analysis}{subsection.5.2}% 65
\BOOKMARK [3][-]{subsubsection.5.2.13}{External Program}{subsection.5.2}% 66
\BOOKMARK [3][-]{subsubsection.5.2.14}{Annotation}{subsection.5.2}% 67
\BOOKMARK [3][-]{subsubsection.5.2.15}{Voxels}{subsection.5.2}% 68
\BOOKMARK [3][-]{subsubsection.5.2.16}{Ion Colour}{subsection.5.2}% 69
\BOOKMARK [3][-]{subsubsection.5.2.17}{Ion Transform}{subsection.5.2}% 70
\BOOKMARK [1][-]{section.6}{Attributions}{}% 71
\BOOKMARK [1][-]{section.7}{Licence}{}% 72
\BOOKMARK [1][-]{section.8}{Appendices}{}% 73
\BOOKMARK [2][-]{subsection.8.1}{Paths}{section.8}% 74
\BOOKMARK [2][-]{subsection.8.2}{File formats}{section.8}% 75
\BOOKMARK [3][-]{subsubsection.8.2.1}{State file}{subsection.8.2}% 76
\BOOKMARK [3][-]{subsubsection.8.2.2}{Remap files}{subsection.8.2}% 77
\BOOKMARK [3][-]{subsubsection.8.2.3}{Range files}{subsection.8.2}% 78
\BOOKMARK [3][-]{subsubsection.8.2.4}{POS files}{subsection.8.2}% 79
\BOOKMARK [3][-]{subsubsection.8.2.5}{Text files}{subsection.8.2}% 80
\BOOKMARK [3][-]{subsubsection.8.2.6}{Voxel data}{subsection.8.2}% 81
\BOOKMARK [2][-]{subsection.8.3}{External Program Examples}{section.8}% 82
\BOOKMARK [3][-]{subsubsection.8.3.1}{Scilab}{subsection.8.3}% 83
\BOOKMARK [3][-]{subsubsection.8.3.2}{Python}{subsection.8.3}% 84
\BOOKMARK [3][-]{subsubsection.8.3.3}{Bash}{subsection.8.3}% 85
\BOOKMARK [3][-]{subsubsection.8.3.4}{C/C++}{subsection.8.3}% 86
\BOOKMARK [2][-]{subsection.8.4}{Modifying the program}{section.8}% 87
\BOOKMARK [3][-]{subsubsection.8.4.1}{Development tools}{subsection.8.4}% 88
\BOOKMARK [3][-]{subsubsection.8.4.2}{Getting yourself set up}{subsection.8.4}% 89
\BOOKMARK [3][-]{subsubsection.8.4.3}{Changing stuff}{subsection.8.4}% 90
