1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231
|
<doxygenlayout version="1.0">
<!-- Generated by doxygen 1.8.14 -->
<!-- Navigation index tabs for HTML output -->
<navindex>
<tab type="mainpage" visible="yes" title=""/>
<!-- <tab type="pages" visible="yes" title="" intro=""/> -->
<tab type="usergroup" visible="yes" title="Setup" intro="">
<tab type="user" visible="yes" title="Quick-Setup (CMake)" url="\ref setup" intro=""/>
<tab type="user" visible="yes" title="Library tests" url="\ref setup_tests" intro=""/>
</tab>
<tab type="usergroup" visible="yes" title="Tutorial" intro="">
<tab type="user" visible="yes" title="First steps" url="@ref tutorial_first_example" intro=""/>
<tab type="user" visible="yes" title="Parsing command line arguments" url="@ref tutorial_argument_parser" intro=""/>
<tab type="user" visible="yes" title="C++ Concepts" url="@ref tutorial_concepts" intro=""/>
<tab type="user" visible="yes" title="Alphabets" url="@ref tutorial_alphabets" intro=""/>
<tab type="user" visible="yes" title="Ranges" url="@ref tutorial_ranges" intro=""/>
<tab type="user" visible="yes" title="Minimiser" url="@ref tutorial_minimiser" intro=""/>
<tab type="user" visible="yes" title="Sequence file I/O" url="@ref tutorial_sequence_file" intro=""/>
<tab type="user" visible="yes" title="Computing pairwise alignments" url="@ref tutorial_pairwise_alignment" intro=""/>
<tab type="user" visible="yes" title="Index and Search" url="@ref tutorial_index_search" intro=""/>
<tab type="user" visible="yes" title="Alignment file I/O" url="@ref tutorial_alignment_file" intro=""/>
<tab type="user" visible="yes" title="Implement your own read mapper" url="@ref tutorial_read_mapper" intro=""/>
</tab>
<tab type="usergroup" visible="yes" title="How-To" intro="">
<tab type="user" visible="yes" title="Subcommand argument parsing" url="\ref subcommand_arg_parse" intro=""/>
<tab type="user" visible="yes" title="Serialize SeqAn data structures" url="\ref howto_use_cereal" intro=""/>
<tab type="user" visible="yes" title="Write your own view" url="\ref howto_write_a_view" intro=""/>
<tab type="user" visible="yes" title="Write your own alphabet" url="\ref howto_write_an_alphabet" intro=""/>
<tab type="user" visible="yes" title="Port from SeqAn2" url="\ref howto_porting" intro=""/>
</tab>
<tab type="user" visible="yes" title="Cookbook" url="\ref cookbook" intro=""/>
<tab type="usergroup" visible="yes" title="About" intro="">
<tab type="user" visible="yes" title="API/ABI stability" url="\ref about_api" intro=""/>
<tab type="user" visible="yes" title="Changelog" url="\ref about_changelog" intro=""/>
<tab type="user" visible="yes" title="Citing" url="\ref about_citing" intro=""/>
<tab type="user" visible="yes" title="Copyright" url="\ref about_copyright" intro=""/>
<tab type="user" visible="yes" title="Code of Conduct" url="\ref about_code_of_conduct" intro=""/>
<tab type="user" visible="yes" title="Contributing" url="\ref about_contributing" intro=""/>
<tab type="user" visible="yes" title="Customisation" url="\ref about_customisation" intro=""/>
</tab>
<tab type="modules" visible="yes" title="API Reference (Modules)" intro=""/>
<tab type="usergroup" visible="yes" title="API Reference (details)" intro="">
<tab type="namespaces" visible="yes" title="">
<tab type="namespacelist" visible="yes" title="" intro=""/>
<tab type="namespacemembers" visible="yes" title="" intro=""/>
</tab>
<tab type="classes" visible="yes" title="">
<tab type="classlist" visible="yes" title="" intro=""/>
<tab type="classindex" visible="$ALPHABETICAL_INDEX" title=""/>
<tab type="hierarchy" visible="yes" title="" intro=""/>
<tab type="classmembers" visible="yes" title="" intro=""/>
</tab>
<tab type="files" visible="yes" title="">
<tab type="filelist" visible="yes" title="" intro=""/>
<tab type="globals" visible="yes" title="" intro=""/>
</tab>
<tab type="examples" visible="yes" title="" intro=""/>
</tab>
</navindex>
<!-- Layout definition for a class page -->
<class>
<briefdescription visible="yes"/>
<includes visible="$SHOW_INCLUDE_FILES"/>
<inheritancegraph visible="$CLASS_GRAPH"/>
<collaborationgraph visible="$COLLABORATION_GRAPH"/>
<memberdecl>
<nestedclasses visible="yes" title=""/>
<publictypes title=""/>
<services title=""/>
<interfaces title=""/>
<publicslots title=""/>
<signals title=""/>
<publicmethods title=""/>
<publicstaticmethods title=""/>
<publicattributes title=""/>
<publicstaticattributes title=""/>
<protectedtypes title=""/>
<protectedslots title=""/>
<protectedmethods title=""/>
<protectedstaticmethods title=""/>
<protectedattributes title=""/>
<protectedstaticattributes title=""/>
<packagetypes title=""/>
<packagemethods title=""/>
<packagestaticmethods title=""/>
<packageattributes title=""/>
<packagestaticattributes title=""/>
<properties title=""/>
<events title=""/>
<privatetypes title=""/>
<privateslots title=""/>
<privatemethods title=""/>
<privatestaticmethods title=""/>
<privateattributes title=""/>
<privatestaticattributes title=""/>
<friends title=""/>
<related title="" subtitle=""/>
<membergroups visible="yes"/>
</memberdecl>
<detaileddescription title=""/>
<memberdef>
<inlineclasses title=""/>
<typedefs title=""/>
<enums title=""/>
<services title=""/>
<interfaces title=""/>
<constructors title=""/>
<functions title=""/>
<related title=""/>
<variables title=""/>
<properties title=""/>
<events title=""/>
</memberdef>
<allmemberslink visible="yes"/>
<usedfiles visible="$SHOW_USED_FILES"/>
<authorsection visible="yes"/>
</class>
<!-- Layout definition for a namespace page -->
<namespace>
<briefdescription visible="yes"/>
<memberdecl>
<nestednamespaces visible="yes" title=""/>
<constantgroups visible="yes" title=""/>
<classes visible="yes" title=""/>
<typedefs title=""/>
<enums title=""/>
<functions title=""/>
<variables title=""/>
<membergroups visible="yes"/>
</memberdecl>
<detaileddescription title=""/>
<memberdef>
<inlineclasses title=""/>
<typedefs title=""/>
<enums title=""/>
<functions title=""/>
<variables title=""/>
</memberdef>
<authorsection visible="yes"/>
</namespace>
<!-- Layout definition for a file page -->
<file>
<briefdescription visible="yes"/>
<includes visible="$SHOW_INCLUDE_FILES"/>
<includegraph visible="$INCLUDE_GRAPH"/>
<includedbygraph visible="$INCLUDED_BY_GRAPH"/>
<sourcelink visible="yes"/>
<memberdecl>
<classes visible="yes" title=""/>
<namespaces visible="yes" title=""/>
<constantgroups visible="yes" title=""/>
<defines title=""/>
<typedefs title=""/>
<enums title=""/>
<functions title=""/>
<variables title=""/>
<membergroups visible="yes"/>
</memberdecl>
<detaileddescription title=""/>
<memberdef>
<inlineclasses title=""/>
<defines title=""/>
<typedefs title=""/>
<enums title=""/>
<functions title=""/>
<variables title=""/>
</memberdef>
<authorsection/>
</file>
<!-- Layout definition for a group page -->
<group>
<briefdescription visible="yes"/>
<groupgraph visible="$GROUP_GRAPHS"/>
<memberdecl>
<nestedgroups visible="yes" title=""/>
<dirs visible="yes" title=""/>
<files visible="yes" title=""/>
<namespaces visible="yes" title=""/>
<classes visible="yes" title=""/>
<defines title=""/>
<typedefs title=""/>
<enums title=""/>
<enumvalues title=""/>
<functions title=""/>
<variables title=""/>
<signals title=""/>
<publicslots title=""/>
<protectedslots title=""/>
<privateslots title=""/>
<events title=""/>
<properties title=""/>
<friends title=""/>
<membergroups visible="yes"/>
</memberdecl>
<detaileddescription title=""/>
<memberdef>
<pagedocs/>
<inlineclasses title=""/>
<defines title=""/>
<typedefs title=""/>
<enums title=""/>
<enumvalues title=""/>
<functions title=""/>
<variables title=""/>
<signals title=""/>
<publicslots title=""/>
<protectedslots title=""/>
<privateslots title=""/>
<events title=""/>
<properties title=""/>
<friends title=""/>
</memberdef>
<authorsection visible="yes"/>
</group>
<!-- Layout definition for a directory page -->
<directory>
<briefdescription visible="yes"/>
<directorygraph visible="yes"/>
<memberdecl>
<dirs visible="yes"/>
<files visible="yes"/>
</memberdecl>
<detaileddescription title=""/>
</directory>
</doxygenlayout>
|