terminologies.xml 20 KB

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  1. <?xml version="1.0" encoding="UTF-8"?>
  2. <?xml-stylesheet type="text/xsl" href="odmlRepository.xsl" xmlns:odml="http://www.g-node.org/odml"?>
  3. <odML version="1.1">
  4. <section>
  5. <type>DataReference</type>
  6. <name>DataCite</name>
  7. <definition>A published dataset referenced by a DOI and registered with DataCite. The referenced dataset will contain either the odML file itself or the data the odML is annotating.</definition>
  8. <include>http://portal.g-node.org/odml/terminologies/v1.1/datareference/datacite.xml</include>
  9. </section>
  10. <section>
  11. <type>DataReference</type>
  12. <name>DataDOI</name>
  13. <definition>A published dataset referenced by a DOI. The referenced dataset will contain either the odML file itself or the data the odML is annotating.</definition>
  14. <include>http://portal.g-node.org/odml/terminologies/v1.1/datareference/datadoi.xml</include>
  15. </section>
  16. <section>
  17. <type>DataReference</type>
  18. <name>DataURI</name>
  19. <definition>A published dataset referenced by a URI. The referenced dataset will contain either the odML file itself or the data the odML is annotating.</definition>
  20. <include>http://portal.g-node.org/odml/terminologies/v1.1/datareference/datauri.xml</include>
  21. </section>
  22. <section>
  23. <type>DataReference</type>
  24. <name>DataURL</name>
  25. <definition>A published dataset referenced by a URL. The referenced dataset will contain either the odML file itself or the data the odML is annotating.</definition>
  26. <include>http://portal.g-node.org/odml/terminologies/v1.1/datareference/dataurl.xml</include>
  27. </section>
  28. <section>
  29. <type>DataReference</type>
  30. <name>DataReferenceDescription</name>
  31. <definition>Description of a data reference. This Section is defined to be used as a subsection of the 'DataReference' type sections.</definition>
  32. <include>http://portal.g-node.org/odml/terminologies/v1.1/datareference/referencedescription.xml</include>
  33. </section>
  34. <section>
  35. <type>analysis</type>
  36. <name>Analysis</name>
  37. <definition>Sections of the Analysis type can be used to describe analyses.</definition>
  38. <include>http://portal.g-node.org/odml/terminologies/v1.1/analysis/analysis.xml</include>
  39. </section>
  40. <section>
  41. <type>analysis/psth</type>
  42. <name>PSTH</name>
  43. <definition>An Analysis-type section to describe a PSTH.</definition>
  44. <include>http://portal.g-node.org/odml/terminologies/v1.1/analysis/psth.xml</include>
  45. </section>
  46. <section>
  47. <type>analysis/power_spectrum</type>
  48. <name>PowerSpectrum</name>
  49. <definition>Properties of this section define the way a power spectrum was calculated.</definition>
  50. <include>http://portal.g-node.org/odml/terminologies/v1.1/analysis/power_spectrum.xml</include>
  51. </section>
  52. <section>
  53. <type>cell</type>
  54. <name>Cell</name>
  55. <definition>Specification of the recorded cell. A cell definition should be a subsection of the
  56. <a href="../subject/subject.xml">Subject</a>
  57. section.
  58. </definition>
  59. <include>http://portal.g-node.org/odml/terminologies/v1.1/cell/cell.xml</include>
  60. </section>
  61. <section>
  62. <type>dataset</type>
  63. <name>Dataset</name>
  64. <definition>Names (URLs) and times of recorded data files. Datasets are obtained during a Recording and may belong
  65. to different Experiments. Related sections that can be used as subsections, parent sections, or siblings are
  66. Stimulus, HardwareSettings, and Experiment.
  67. </definition>
  68. <include>http://portal.g-node.org/odml/terminologies/v1.1/dataset/dataset.xml</include>
  69. </section>
  70. <section>
  71. <type>blackrock</type>
  72. <name>Blackrock</name>
  73. <definition>Information on the Cerebus^TM data acquisition system</definition>
  74. <include>http://portal.g-node.org/odml/terminologies/v1.1/blackrock/blackrock.xml</include>
  75. </section>
  76. <section>
  77. <type>electrode</type>
  78. <name>Electrode</name>
  79. <definition>Properties to describe an electrode.</definition>
  80. <include>http://portal.g-node.org/odml/terminologies/v1.1/electrode/electrode.xml</include>
  81. </section>
  82. <section>
  83. <type>event</type>
  84. <name>Event</name>
  85. <definition>Section for short annotations that are taken during an experiment to describe certain events.
  86. </definition>
  87. <include>http://portal.g-node.org/odml/terminologies/v1.1/event/event.xml</include>
  88. </section>
  89. <section>
  90. <type>event_list</type>
  91. <name>EventList</name>
  92. <definition>Section for grouping short annotations that are taken during
  93. an experiment, preparation etc...
  94. </definition>
  95. <include>http://portal.g-node.org/odml/terminologies/v1.1/collection/event_list.xml</include>
  96. </section>
  97. <section>
  98. <type>experiment</type>
  99. <name>Experiment</name>
  100. <definition>Specification of an experiment. The Experiment is part of a Project and the recorded data for a specific
  101. Experiment are found in Datasets. Possible subsections are, for example, Dataset and Stimulus.
  102. </definition>
  103. <include>http://portal.g-node.org/odml/terminologies/v1.1/experiment/experiment.xml</include>
  104. </section>
  105. <section>
  106. <type>experiment/behavior</type>
  107. <name>Behavior</name>
  108. <definition>Properties for describing an behavioural experiment.</definition>
  109. <include>http://portal.g-node.org/odml/terminologies/v1.1/experiment/behavior.xml</include>
  110. </section>
  111. <section>
  112. <type>experiment/electrophysiology</type>
  113. <name>Electrophysiology</name>
  114. <definition>Properties for describing an electrophysiological experiment.</definition>
  115. <include>http://portal.g-node.org/odml/terminologies/v1.1/experiment/electrophysiology.xml</include>
  116. </section>
  117. <section>
  118. <type>experiment/imaging</type>
  119. <name>Imaging</name>
  120. <definition>Properties for describing an imaging experiment ranging from conventional light microscpoy to fMRI.
  121. </definition>
  122. <include>http://portal.g-node.org/odml/terminologies/v1.1/experiment/imaging.xml</include>
  123. </section>
  124. <section>
  125. <type>experiment/pschophysics</type>
  126. <name>Psychophysics</name>
  127. <definition>Properties for describing an psychophysical experiment.</definition>
  128. <include>http://portal.g-node.org/odml/terminologies/v1.1/experiment/psychophysics.xml</include>
  129. </section>
  130. <section>
  131. <type>hardware_properties</type>
  132. <name>HardwareProperties</name>
  133. <include>http://portal.g-node.org/odml/terminologies/v1.1/collection/hardware_properties.xml</include>
  134. </section>
  135. <section>
  136. <type>hardware_settings</type>
  137. <name>HardwareSettings</name>
  138. <definition>The used values of variable properties of hardware
  139. components. There are two sections for describing hardware
  140. components: the "HardwareProperties" and the "HardwareSettings"
  141. section. While the HardwareProperties describe the fixed
  142. properties of the hardware that can not be changed, the
  143. HardwareSettings section describes the actual, adjustable,
  144. parameters of the hardware that may change with each recording
  145. or dataset. For example, the sample rate of an data-acquisition
  146. board or the settings of a filter. In each of these two sections
  147. there are subsections for each device that correspond to the
  148. class of the device like data-acquisition, amplifier, etc. Some
  149. properties are common for any type.
  150. </definition>
  151. <include>http://portal.g-node.org/odml/terminologies/v1.1/collection/hardware_settings.xml</include>
  152. </section>
  153. <section>
  154. <type>hardware</type>
  155. <name>Hardware</name>
  156. <definition>Fixed properties of hardware components used in the
  157. experimental setup. There are two sections for describing
  158. hardware components: the "HardwareProperties" and the
  159. "HardwareSettings" section. While the HardwareProperties
  160. describe the fixed properties of the hardware that can not be
  161. changed, the HardwareSettings section describes the actual,
  162. adjustable, parameters of the hardware that may change with each
  163. recording or dataset. For example, the sample rate of an
  164. data-acquisition board or the settings of a filter. In each of
  165. these two sections there are subsections for each device that
  166. correspond to the class of the device like data-acquisition,
  167. amplifier, etc. Some properties are common for any
  168. type.
  169. </definition>
  170. <include>http://portal.g-node.org/odml/terminologies/v1.1/hardware/hardware.xml</include>
  171. </section>
  172. <section>
  173. <type>hardware/amplifier</type>
  174. <name>Amplifier</name>
  175. <definition>The amplifier section defines elements that can be used to describe amplifier properties and settings.
  176. </definition>
  177. <include>http://portal.g-node.org/odml/terminologies/v1.1/hardware/amplifier.xml</include>
  178. </section>
  179. <section>
  180. <type>hardware/attenuator</type>
  181. <name>Attenuator</name>
  182. <definition>Settings of the data acquisition system. most settings refer to individual channels the channel
  183. number should be given after the property name like DAQ. AISampleRate0 for the sampling rate of the analog
  184. input channel 0.
  185. </definition>
  186. <include>http://portal.g-node.org/odml/terminologies/v1.1/hardware/attenuator.xml</include>
  187. </section>
  188. <section>
  189. <type>hardware/camera_objective</type>
  190. <name>CameraObjective</name>
  191. <definition>This section contains properties that describe a camera objective.</definition>
  192. <include>http://portal.g-node.org/odml/terminologies/v1.1/hardware/attenuator.xml</include>
  193. </section>
  194. <section>
  195. <type>hardware/daq</type>
  196. <name>DataAcquisition</name>
  197. <definition>The hardware section describes the settings of the used hardware. There should be one hardware section
  198. for each hardware item that was used.
  199. </definition>
  200. <include>http://portal.g-node.org/odml/terminologies/v1.1/hardware/daq.xml</include>
  201. </section>
  202. <section>
  203. <type>hardware/eyetracker</type>
  204. <name>Eyetracker</name>
  205. <definition>Properties of an eyetracker.</definition>
  206. <include>http://portal.g-node.org/odml/terminologies/v1.1/hardware/eyetracker.xml</include>
  207. </section>
  208. <section>
  209. <type>hardware/filter</type>
  210. <name>Filter</name>
  211. <definition>Properties a filter modul for analog signal conditioning.</definition>
  212. <include>http://portal.g-node.org/odml/terminologies/v1.1/hardware/filter.xml</include>
  213. </section>
  214. <section>
  215. <type>hardware/filter_set</type>
  216. <name>Filterset</name>
  217. <definition>The FilterSet or also FilterCube used in a microscope.</definition>
  218. <include>http://portal.g-node.org/odml/terminologies/v1.1/hardware/filter_set.xml</include>
  219. </section>
  220. <section>
  221. <type>hardware/iaq</type>
  222. <name>ImageAcquisition</name>
  223. <definition>Properties to define an Image acquisition device. This can be a framegrabber, a camera etc.</definition>
  224. <include>http://portal.g-node.org/odml/terminologies/v1.1/hardware/iaq.xml</include>
  225. </section>
  226. <section>
  227. <type>hardware/microscope</type>
  228. <name>Microscope</name>
  229. <definition>The Microscope section describes the properties of the used microscope.</definition>
  230. <include>http://portal.g-node.org/odml/terminologies/v1.1/hardware/microscope.xml</include>
  231. </section>
  232. <section>
  233. <type>hardware/microscope_objective</type>
  234. <name>MicroscopeObjective</name>
  235. <definition>This section contains properties that describe the objective used in a microscope.</definition>
  236. <include>http://portal.g-node.org/odml/terminologies/v1.1/hardware/microscope_objective.xml</include>
  237. </section>
  238. <section>
  239. <type>hardware/scanner</type>
  240. <name>Scanner</name>
  241. <definition>The Scanner used to scan microscope images.</definition>
  242. <include>http://portal.g-node.org/odml/terminologies/v1.1/hardware/scanner.xml</include>
  243. </section>
  244. <section>
  245. <type>hardware/stimulus_isolator</type>
  246. <name>StimulusIsolator</name>
  247. <definition>Properties of a stimulus Isolator device.</definition>
  248. <include>http://portal.g-node.org/odml/terminologies/v1.1/hardware/stimulus_isolator.xml</include>
  249. </section>
  250. <section>
  251. <type>model/lif</type>
  252. <name>Leaky integrate and fire</name>
  253. <definition>Section to describe a leaky integrate and fire neuron model.</definition>
  254. <include>http://portal.g-node.org/odml/terminologies/v1.1/model/lif.xml</include>
  255. </section>
  256. <section>
  257. <type>model/pif</type>
  258. <name>perfect integrate and fire</name>
  259. <definition>Section to describe a perfect integrate and fire model.</definition>
  260. <include>http://portal.g-node.org/odml/terminologies/v1.1/model/pif.xml</include>
  261. </section>
  262. <section>
  263. <type>model/multi_compartment</type>
  264. <name>Multi compartment model</name>
  265. <definition>Section to describe a biophysical model that consists of a number of compartments.</definition>
  266. <include>http://portal.g-node.org/odml/terminologies/v1.1/model/multi_compartment.xml</include>
  267. </section>
  268. <section>
  269. <type>model/single_compartment</type>
  270. <name>One compartment model</name>
  271. <definition>Section to describe a biophysical model that consists of a single compartment.</definition>
  272. <include>http://portal.g-node.org/odml/terminologies/v1.1/model/single_compartment.xml</include>
  273. </section>
  274. <section>
  275. <type>license</type>
  276. <name>License</name>
  277. <definition>This section contains keywords to a data or software license.</definition>
  278. <include>http://portal.g-node.org/odml/terminologies/v1.1/license/license.xml</include>
  279. </section>
  280. <section>
  281. <type>questionnaire/questionnaire</type>
  282. <name>Questionnaire</name>
  283. <definition>Description of a questionnaire.</definition>
  284. <include>http://portal.g-node.org/odml/terminologies/v1.1/questionnaire/questionnaire.xml</include>
  285. </section>
  286. <section>
  287. <type>questionnaire/question</type>
  288. <name>Question</name>
  289. <definition>Description of a question if a questionnaire.</definition>
  290. <include>http://portal.g-node.org/odml/terminologies/v1.1/questionnaire/question.xml</include>
  291. </section>
  292. <section>
  293. <type>person</type>
  294. <name>Person</name>
  295. <definition>Information about a person. E.g. as Experimenter, Author, etc.</definition>
  296. <include>http://portal.g-node.org/odml/terminologies/v1.1/person/person.xml</include>
  297. </section>
  298. <section>
  299. <type>preparation</type>
  300. <name>Preparation</name>
  301. <definition>Description of the preparation procedure.</definition>
  302. <include>http://portal.g-node.org/odml/terminologies/v1.1/preparation/preparation.xml</include>
  303. </section>
  304. <section>
  305. <type>project</type>
  306. <name>Project</name>
  307. <definition>Information about the project.</definition>
  308. <include>http://portal.g-node.org/odml/terminologies/v1.1/project/project.xml</include>
  309. </section>
  310. <section>
  311. <type>protocol</type>
  312. <name>protocol</name>
  313. <definition>Information about the experimental protocol.</definition>
  314. <include>http://portal.g-node.org/odml/terminologies/v1.1/protocol/protocol.xml</include>
  315. </section>
  316. <section>
  317. <type>recording</type>
  318. <name>Recording</name>
  319. <definition>During a recording session in a Setup Datasets are obtained from Cells and/or a Subject by using various
  320. stimuli (Stimulus section).
  321. </definition>
  322. <include>http://portal.g-node.org/odml/terminologies/v1.1/recording/recording.xml</include>
  323. </section>
  324. <section>
  325. <type>response</type>
  326. <name>Response</name>
  327. <definition>General description of an received response (on stimulus).</definition>
  328. <include>http://portal.g-node.org/odml/terminologies/v1.1/response/response.xml</include>
  329. </section>
  330. <section>
  331. <type>setup</type>
  332. <name>Setup</name>
  333. <definition>The experimental setup used in the recordings. By using HardwareProperties as a subsection, a very
  334. detailed description of the setup can be given.
  335. </definition>
  336. <include>http://portal.g-node.org/odml/terminologies/v1.1/setup/setup.xml</include>
  337. </section>
  338. <section>
  339. <type>stimulus</type>
  340. <name>Stimulus</name>
  341. <definition>General description of an applied stimulus. This section is basis of various related sections that
  342. specify more specific stimuli.
  343. </definition>
  344. <include>http://portal.g-node.org/odml/terminologies/v1.1/stimulus/stimulus.xml</include>
  345. </section>
  346. <section>
  347. <type>stimulus/dc</type>
  348. <name>DC</name>
  349. <definition>Property definitions to describe a DC stimulus meaning a constant stimulus e.g. a constant illumination,
  350. current etc.
  351. </definition>
  352. <include>http://portal.g-node.org/odml/terminologies/v1.1/stimulus/dc.xml</include>
  353. </section>
  354. <section>
  355. <type>stimulus/gabor</type>
  356. <name>Gabor</name>
  357. <include>http://portal.g-node.org/odml/terminologies/v1.1/stimulus/gabor.xml</include>
  358. </section>
  359. <section>
  360. <type>stimulus/grating</type>
  361. <name>Grating</name>
  362. <definition>Property definitions to describe Gabor stimuli.</definition>
  363. <include>http://portal.g-node.org/odml/terminologies/v1.1/stimulus/grating.xml</include>
  364. </section>
  365. <section>
  366. <type>stimulus/pulse</type>
  367. <name>Pulse</name>
  368. <definition>Properties to describe a simple pulse stimulus that starts from and returns to a certain baseline.
  369. </definition>
  370. <include>http://portal.g-node.org/odml/terminologies/v1.1/stimulus/pulse.xml</include>
  371. </section>
  372. <section>
  373. <type>stimulus/movie</type>
  374. <name>Movie</name>
  375. <definition>Properties to describe a movie (or image sequence) stimulus.</definition>
  376. <include>http://portal.g-node.org/odml/terminologies/v1.1/stimulus/movie.xml</include>
  377. </section>
  378. <section>
  379. <type>stimulus/ramp</type>
  380. <name>Ramp</name>
  381. <definition>A ramp stimulus may either linearly increase or decrease in amplitude. Starting from a certain start
  382. amplitude and reaching with a certain slope the destination amplitude.
  383. </definition>
  384. <include>http://portal.g-node.org/odml/terminologies/v1.1/stimulus/ramp.xml</include>
  385. </section>
  386. <section>
  387. <type>stimulus/random_dot</type>
  388. <name>RandomDot</name>
  389. <definition>Properties to describe a random dot stimulus.</definition>
  390. <include>http://portal.g-node.org/odml/terminologies/v1.1/stimulus/random_dot.xml</include>
  391. </section>
  392. <section>
  393. <type>stimulus/sawtooth</type>
  394. <name>Sawtooth</name>
  395. <include>http://portal.g-node.org/odml/terminologies/v1.1/stimulus/sawtooth.xml</include>
  396. </section>
  397. <section>
  398. <type>stimulus/sine_wave</type>
  399. <name>Sinewave</name>
  400. <definition>Sawtooth Properties.</definition>
  401. <include>http://portal.g-node.org/odml/terminologies/v1.1/stimulus/sine_wave.xml</include>
  402. </section>
  403. <section>
  404. <type>stimulus/square_wave</type>
  405. <name>Squarewave</name>
  406. <definition>A squarewave stimulus was presented. Squarewaves modulate with a certain frequency about the intensity
  407. offset.
  408. </definition>
  409. <include>http://portal.g-node.org/odml/terminologies/v1.1/stimulus/square_wave.xml</include>
  410. </section>
  411. <section>
  412. <type>stimulus/white_noise</type>
  413. <name>Whitenoise</name>
  414. <definition>Property definitions to describe a white noise stimulus.</definition>
  415. <include>http://portal.g-node.org/odml/terminologies/v1.1/stimulus/white_noise.xml</include>
  416. </section>
  417. <section>
  418. <type>subject</type>
  419. <name>Subject</name>
  420. <definition>The investigated experimental subject (animal or person).
  421. May contain the Cell and Preparation sections as subsections.
  422. </definition>
  423. <include>http://portal.g-node.org/odml/terminologies/v1.1/subject/subject.xml</include>
  424. </section>
  425. <section>
  426. <type>carmen_mini</type>
  427. <name>CarmenMini</name>
  428. <definition>This is a convenience section that lists the terms of the CARMEN MINI (Gibson et al. Nature Precedings,
  429. 2009 Version 0.6) and maps them to the odml "standard" terminologies.
  430. </definition>
  431. <include>http://portal.g-node.org/odml/terminologies/v1.1/carmenMini/carmen_mini.xml</include>
  432. </section>
  433. </odML>