scitex 2.14.0__py3-none-any.whl → 2.15.2__py3-none-any.whl

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (300) hide show
  1. scitex/__init__.py +71 -17
  2. scitex/_env_loader.py +156 -0
  3. scitex/_mcp_resources/__init__.py +37 -0
  4. scitex/_mcp_resources/_cheatsheet.py +135 -0
  5. scitex/_mcp_resources/_figrecipe.py +138 -0
  6. scitex/_mcp_resources/_formats.py +102 -0
  7. scitex/_mcp_resources/_modules.py +337 -0
  8. scitex/_mcp_resources/_session.py +149 -0
  9. scitex/_mcp_tools/__init__.py +4 -0
  10. scitex/_mcp_tools/audio.py +66 -0
  11. scitex/_mcp_tools/diagram.py +11 -95
  12. scitex/_mcp_tools/introspect.py +210 -0
  13. scitex/_mcp_tools/plt.py +260 -305
  14. scitex/_mcp_tools/scholar.py +74 -0
  15. scitex/_mcp_tools/social.py +244 -0
  16. scitex/_mcp_tools/template.py +24 -0
  17. scitex/_mcp_tools/writer.py +21 -204
  18. scitex/ai/_gen_ai/_PARAMS.py +10 -7
  19. scitex/ai/classification/reporters/_SingleClassificationReporter.py +45 -1603
  20. scitex/ai/classification/reporters/_mixins/__init__.py +36 -0
  21. scitex/ai/classification/reporters/_mixins/_constants.py +67 -0
  22. scitex/ai/classification/reporters/_mixins/_cv_summary.py +387 -0
  23. scitex/ai/classification/reporters/_mixins/_feature_importance.py +119 -0
  24. scitex/ai/classification/reporters/_mixins/_metrics.py +275 -0
  25. scitex/ai/classification/reporters/_mixins/_plotting.py +179 -0
  26. scitex/ai/classification/reporters/_mixins/_reports.py +153 -0
  27. scitex/ai/classification/reporters/_mixins/_storage.py +160 -0
  28. scitex/ai/classification/timeseries/_TimeSeriesSlidingWindowSplit.py +30 -1550
  29. scitex/ai/classification/timeseries/_sliding_window_core.py +467 -0
  30. scitex/ai/classification/timeseries/_sliding_window_plotting.py +369 -0
  31. scitex/audio/README.md +40 -36
  32. scitex/audio/__init__.py +129 -61
  33. scitex/audio/_branding.py +185 -0
  34. scitex/audio/_mcp/__init__.py +32 -0
  35. scitex/audio/_mcp/handlers.py +59 -6
  36. scitex/audio/_mcp/speak_handlers.py +238 -0
  37. scitex/audio/_relay.py +225 -0
  38. scitex/audio/_tts.py +18 -10
  39. scitex/audio/engines/base.py +17 -10
  40. scitex/audio/engines/elevenlabs_engine.py +7 -2
  41. scitex/audio/mcp_server.py +228 -75
  42. scitex/canvas/README.md +1 -1
  43. scitex/canvas/editor/_dearpygui/__init__.py +25 -0
  44. scitex/canvas/editor/_dearpygui/_editor.py +147 -0
  45. scitex/canvas/editor/_dearpygui/_handlers.py +476 -0
  46. scitex/canvas/editor/_dearpygui/_panels/__init__.py +17 -0
  47. scitex/canvas/editor/_dearpygui/_panels/_control.py +119 -0
  48. scitex/canvas/editor/_dearpygui/_panels/_element_controls.py +190 -0
  49. scitex/canvas/editor/_dearpygui/_panels/_preview.py +43 -0
  50. scitex/canvas/editor/_dearpygui/_panels/_sections.py +390 -0
  51. scitex/canvas/editor/_dearpygui/_plotting.py +187 -0
  52. scitex/canvas/editor/_dearpygui/_rendering.py +504 -0
  53. scitex/canvas/editor/_dearpygui/_selection.py +295 -0
  54. scitex/canvas/editor/_dearpygui/_state.py +93 -0
  55. scitex/canvas/editor/_dearpygui/_utils.py +61 -0
  56. scitex/canvas/editor/flask_editor/_core/__init__.py +27 -0
  57. scitex/canvas/editor/flask_editor/_core/_bbox_extraction.py +200 -0
  58. scitex/canvas/editor/flask_editor/_core/_editor.py +173 -0
  59. scitex/canvas/editor/flask_editor/_core/_export_helpers.py +353 -0
  60. scitex/canvas/editor/flask_editor/_core/_routes_basic.py +190 -0
  61. scitex/canvas/editor/flask_editor/_core/_routes_export.py +332 -0
  62. scitex/canvas/editor/flask_editor/_core/_routes_panels.py +252 -0
  63. scitex/canvas/editor/flask_editor/_core/_routes_save.py +218 -0
  64. scitex/canvas/editor/flask_editor/_core.py +25 -1684
  65. scitex/canvas/editor/flask_editor/templates/__init__.py +32 -70
  66. scitex/cli/__init__.py +38 -43
  67. scitex/cli/audio.py +76 -27
  68. scitex/cli/capture.py +13 -20
  69. scitex/cli/introspect.py +481 -0
  70. scitex/cli/main.py +200 -109
  71. scitex/cli/mcp.py +60 -34
  72. scitex/cli/plt.py +357 -0
  73. scitex/cli/repro.py +15 -8
  74. scitex/cli/resource.py +15 -8
  75. scitex/cli/scholar/__init__.py +23 -8
  76. scitex/cli/scholar/_crossref_scitex.py +296 -0
  77. scitex/cli/scholar/_fetch.py +25 -3
  78. scitex/cli/social.py +314 -0
  79. scitex/cli/stats.py +15 -8
  80. scitex/cli/template.py +129 -12
  81. scitex/cli/tex.py +15 -8
  82. scitex/cli/writer.py +132 -8
  83. scitex/cloud/__init__.py +41 -2
  84. scitex/config/README.md +1 -1
  85. scitex/config/__init__.py +16 -2
  86. scitex/config/_env_registry.py +256 -0
  87. scitex/context/__init__.py +22 -0
  88. scitex/dev/__init__.py +20 -1
  89. scitex/diagram/__init__.py +42 -19
  90. scitex/diagram/mcp_server.py +13 -125
  91. scitex/gen/__init__.py +50 -14
  92. scitex/gen/_list_packages.py +4 -4
  93. scitex/introspect/__init__.py +82 -0
  94. scitex/introspect/_call_graph.py +303 -0
  95. scitex/introspect/_class_hierarchy.py +163 -0
  96. scitex/introspect/_core.py +41 -0
  97. scitex/introspect/_docstring.py +131 -0
  98. scitex/introspect/_examples.py +113 -0
  99. scitex/introspect/_imports.py +271 -0
  100. scitex/{gen/_inspect_module.py → introspect/_list_api.py} +43 -54
  101. scitex/introspect/_mcp/__init__.py +41 -0
  102. scitex/introspect/_mcp/handlers.py +233 -0
  103. scitex/introspect/_members.py +155 -0
  104. scitex/introspect/_resolve.py +89 -0
  105. scitex/introspect/_signature.py +131 -0
  106. scitex/introspect/_source.py +80 -0
  107. scitex/introspect/_type_hints.py +172 -0
  108. scitex/io/_save.py +1 -2
  109. scitex/io/bundle/README.md +1 -1
  110. scitex/logging/_formatters.py +19 -9
  111. scitex/mcp_server.py +98 -5
  112. scitex/os/__init__.py +4 -0
  113. scitex/{gen → os}/_check_host.py +4 -5
  114. scitex/plt/__init__.py +245 -550
  115. scitex/plt/_subplots/_AxisWrapperMixins/_SeabornMixin/_wrappers.py +5 -10
  116. scitex/plt/docs/EXTERNAL_PACKAGE_BRANDING.md +149 -0
  117. scitex/plt/gallery/README.md +1 -1
  118. scitex/plt/utils/_hitmap/__init__.py +82 -0
  119. scitex/plt/utils/_hitmap/_artist_extraction.py +343 -0
  120. scitex/plt/utils/_hitmap/_color_application.py +346 -0
  121. scitex/plt/utils/_hitmap/_color_conversion.py +121 -0
  122. scitex/plt/utils/_hitmap/_constants.py +40 -0
  123. scitex/plt/utils/_hitmap/_hitmap_core.py +334 -0
  124. scitex/plt/utils/_hitmap/_path_extraction.py +357 -0
  125. scitex/plt/utils/_hitmap/_query.py +113 -0
  126. scitex/plt/utils/_hitmap.py +46 -1616
  127. scitex/plt/utils/_metadata/__init__.py +80 -0
  128. scitex/plt/utils/_metadata/_artists/__init__.py +25 -0
  129. scitex/plt/utils/_metadata/_artists/_base.py +195 -0
  130. scitex/plt/utils/_metadata/_artists/_collections.py +356 -0
  131. scitex/plt/utils/_metadata/_artists/_extract.py +57 -0
  132. scitex/plt/utils/_metadata/_artists/_images.py +80 -0
  133. scitex/plt/utils/_metadata/_artists/_lines.py +261 -0
  134. scitex/plt/utils/_metadata/_artists/_patches.py +247 -0
  135. scitex/plt/utils/_metadata/_artists/_text.py +106 -0
  136. scitex/plt/utils/_metadata/_csv.py +416 -0
  137. scitex/plt/utils/_metadata/_detect.py +225 -0
  138. scitex/plt/utils/_metadata/_legend.py +127 -0
  139. scitex/plt/utils/_metadata/_rounding.py +117 -0
  140. scitex/plt/utils/_metadata/_verification.py +202 -0
  141. scitex/schema/README.md +1 -1
  142. scitex/scholar/__init__.py +8 -0
  143. scitex/scholar/_mcp/crossref_handlers.py +265 -0
  144. scitex/scholar/core/Scholar.py +63 -1700
  145. scitex/scholar/core/_mixins/__init__.py +36 -0
  146. scitex/scholar/core/_mixins/_enrichers.py +270 -0
  147. scitex/scholar/core/_mixins/_library_handlers.py +100 -0
  148. scitex/scholar/core/_mixins/_loaders.py +103 -0
  149. scitex/scholar/core/_mixins/_pdf_download.py +375 -0
  150. scitex/scholar/core/_mixins/_pipeline.py +312 -0
  151. scitex/scholar/core/_mixins/_project_handlers.py +125 -0
  152. scitex/scholar/core/_mixins/_savers.py +69 -0
  153. scitex/scholar/core/_mixins/_search.py +103 -0
  154. scitex/scholar/core/_mixins/_services.py +88 -0
  155. scitex/scholar/core/_mixins/_url_finding.py +105 -0
  156. scitex/scholar/crossref_scitex.py +367 -0
  157. scitex/scholar/docs/EXTERNAL_PACKAGE_BRANDING.md +149 -0
  158. scitex/scholar/examples/00_run_all.sh +120 -0
  159. scitex/scholar/jobs/_executors.py +27 -3
  160. scitex/scholar/pdf_download/ScholarPDFDownloader.py +38 -416
  161. scitex/scholar/pdf_download/_cli.py +154 -0
  162. scitex/scholar/pdf_download/strategies/__init__.py +11 -8
  163. scitex/scholar/pdf_download/strategies/manual_download_fallback.py +80 -3
  164. scitex/scholar/pipelines/ScholarPipelineBibTeX.py +73 -121
  165. scitex/scholar/pipelines/ScholarPipelineParallel.py +80 -138
  166. scitex/scholar/pipelines/ScholarPipelineSingle.py +43 -63
  167. scitex/scholar/pipelines/_single_steps.py +71 -36
  168. scitex/scholar/storage/_LibraryManager.py +97 -1695
  169. scitex/scholar/storage/_mixins/__init__.py +30 -0
  170. scitex/scholar/storage/_mixins/_bibtex_handlers.py +128 -0
  171. scitex/scholar/storage/_mixins/_library_operations.py +218 -0
  172. scitex/scholar/storage/_mixins/_metadata_conversion.py +226 -0
  173. scitex/scholar/storage/_mixins/_paper_saving.py +456 -0
  174. scitex/scholar/storage/_mixins/_resolution.py +376 -0
  175. scitex/scholar/storage/_mixins/_storage_helpers.py +121 -0
  176. scitex/scholar/storage/_mixins/_symlink_handlers.py +226 -0
  177. scitex/scholar/url_finder/.tmp/open_url/KNOWN_RESOLVERS.py +462 -0
  178. scitex/scholar/url_finder/.tmp/open_url/README.md +223 -0
  179. scitex/scholar/url_finder/.tmp/open_url/_DOIToURLResolver.py +694 -0
  180. scitex/scholar/url_finder/.tmp/open_url/_OpenURLResolver.py +1160 -0
  181. scitex/scholar/url_finder/.tmp/open_url/_ResolverLinkFinder.py +344 -0
  182. scitex/scholar/url_finder/.tmp/open_url/__init__.py +24 -0
  183. scitex/security/README.md +3 -3
  184. scitex/session/README.md +1 -1
  185. scitex/session/__init__.py +26 -7
  186. scitex/session/_decorator.py +1 -1
  187. scitex/sh/README.md +1 -1
  188. scitex/sh/__init__.py +7 -4
  189. scitex/social/__init__.py +155 -0
  190. scitex/social/docs/EXTERNAL_PACKAGE_BRANDING.md +149 -0
  191. scitex/stats/_mcp/_handlers/__init__.py +31 -0
  192. scitex/stats/_mcp/_handlers/_corrections.py +113 -0
  193. scitex/stats/_mcp/_handlers/_descriptive.py +78 -0
  194. scitex/stats/_mcp/_handlers/_effect_size.py +106 -0
  195. scitex/stats/_mcp/_handlers/_format.py +94 -0
  196. scitex/stats/_mcp/_handlers/_normality.py +110 -0
  197. scitex/stats/_mcp/_handlers/_posthoc.py +224 -0
  198. scitex/stats/_mcp/_handlers/_power.py +247 -0
  199. scitex/stats/_mcp/_handlers/_recommend.py +102 -0
  200. scitex/stats/_mcp/_handlers/_run_test.py +279 -0
  201. scitex/stats/_mcp/_handlers/_stars.py +48 -0
  202. scitex/stats/_mcp/handlers.py +19 -1171
  203. scitex/stats/auto/_stat_style.py +175 -0
  204. scitex/stats/auto/_style_definitions.py +411 -0
  205. scitex/stats/auto/_styles.py +22 -620
  206. scitex/stats/descriptive/__init__.py +11 -8
  207. scitex/stats/descriptive/_ci.py +39 -0
  208. scitex/stats/power/_power.py +15 -4
  209. scitex/str/__init__.py +2 -1
  210. scitex/str/_title_case.py +63 -0
  211. scitex/template/README.md +1 -1
  212. scitex/template/__init__.py +25 -10
  213. scitex/template/_code_templates.py +147 -0
  214. scitex/template/_mcp/handlers.py +81 -0
  215. scitex/template/_mcp/tool_schemas.py +55 -0
  216. scitex/template/_templates/__init__.py +51 -0
  217. scitex/template/_templates/audio.py +233 -0
  218. scitex/template/_templates/canvas.py +312 -0
  219. scitex/template/_templates/capture.py +268 -0
  220. scitex/template/_templates/config.py +43 -0
  221. scitex/template/_templates/diagram.py +294 -0
  222. scitex/template/_templates/io.py +107 -0
  223. scitex/template/_templates/module.py +53 -0
  224. scitex/template/_templates/plt.py +202 -0
  225. scitex/template/_templates/scholar.py +267 -0
  226. scitex/template/_templates/session.py +130 -0
  227. scitex/template/_templates/session_minimal.py +43 -0
  228. scitex/template/_templates/session_plot.py +67 -0
  229. scitex/template/_templates/session_stats.py +77 -0
  230. scitex/template/_templates/stats.py +323 -0
  231. scitex/template/_templates/writer.py +296 -0
  232. scitex/template/clone_writer_directory.py +5 -5
  233. scitex/ui/_backends/_email.py +10 -2
  234. scitex/ui/_backends/_webhook.py +5 -1
  235. scitex/web/_search_pubmed.py +10 -6
  236. scitex/writer/README.md +1 -1
  237. scitex/writer/_mcp/handlers.py +11 -744
  238. scitex/writer/_mcp/tool_schemas.py +5 -335
  239. scitex-2.15.2.dist-info/METADATA +648 -0
  240. {scitex-2.14.0.dist-info → scitex-2.15.2.dist-info}/RECORD +246 -150
  241. scitex/canvas/editor/flask_editor/templates/_scripts.py +0 -4933
  242. scitex/canvas/editor/flask_editor/templates/_styles.py +0 -1658
  243. scitex/dev/plt/data/mpl/PLOTTING_FUNCTIONS.yaml +0 -90
  244. scitex/dev/plt/data/mpl/PLOTTING_SIGNATURES.yaml +0 -1571
  245. scitex/dev/plt/data/mpl/PLOTTING_SIGNATURES_DETAILED.yaml +0 -6262
  246. scitex/dev/plt/data/mpl/SIGNATURES_FLATTENED.yaml +0 -1274
  247. scitex/dev/plt/data/mpl/dir_ax.txt +0 -459
  248. scitex/diagram/_compile.py +0 -312
  249. scitex/diagram/_diagram.py +0 -355
  250. scitex/diagram/_mcp/__init__.py +0 -4
  251. scitex/diagram/_mcp/handlers.py +0 -400
  252. scitex/diagram/_mcp/tool_schemas.py +0 -157
  253. scitex/diagram/_presets.py +0 -173
  254. scitex/diagram/_schema.py +0 -182
  255. scitex/diagram/_split.py +0 -278
  256. scitex/gen/_ci.py +0 -12
  257. scitex/gen/_title_case.py +0 -89
  258. scitex/plt/_mcp/__init__.py +0 -4
  259. scitex/plt/_mcp/_handlers_annotation.py +0 -102
  260. scitex/plt/_mcp/_handlers_figure.py +0 -195
  261. scitex/plt/_mcp/_handlers_plot.py +0 -252
  262. scitex/plt/_mcp/_handlers_style.py +0 -219
  263. scitex/plt/_mcp/handlers.py +0 -74
  264. scitex/plt/_mcp/tool_schemas.py +0 -497
  265. scitex/plt/mcp_server.py +0 -231
  266. scitex/scholar/data/.gitkeep +0 -0
  267. scitex/scholar/data/README.md +0 -44
  268. scitex/scholar/data/bib_files/bibliography.bib +0 -1952
  269. scitex/scholar/data/bib_files/neurovista.bib +0 -277
  270. scitex/scholar/data/bib_files/neurovista_enriched.bib +0 -441
  271. scitex/scholar/data/bib_files/neurovista_enriched_enriched.bib +0 -441
  272. scitex/scholar/data/bib_files/neurovista_processed.bib +0 -338
  273. scitex/scholar/data/bib_files/openaccess.bib +0 -89
  274. scitex/scholar/data/bib_files/pac-seizure_prediction_enriched.bib +0 -2178
  275. scitex/scholar/data/bib_files/pac.bib +0 -698
  276. scitex/scholar/data/bib_files/pac_enriched.bib +0 -1061
  277. scitex/scholar/data/bib_files/pac_processed.bib +0 -0
  278. scitex/scholar/data/bib_files/pac_titles.txt +0 -75
  279. scitex/scholar/data/bib_files/paywalled.bib +0 -98
  280. scitex/scholar/data/bib_files/related-papers-by-coauthors.bib +0 -58
  281. scitex/scholar/data/bib_files/related-papers-by-coauthors_enriched.bib +0 -87
  282. scitex/scholar/data/bib_files/seizure_prediction.bib +0 -694
  283. scitex/scholar/data/bib_files/seizure_prediction_processed.bib +0 -0
  284. scitex/scholar/data/bib_files/test_complete_enriched.bib +0 -437
  285. scitex/scholar/data/bib_files/test_final_enriched.bib +0 -437
  286. scitex/scholar/data/bib_files/test_seizure.bib +0 -46
  287. scitex/scholar/data/impact_factor/JCR_IF_2022.xlsx +0 -0
  288. scitex/scholar/data/impact_factor/JCR_IF_2024.db +0 -0
  289. scitex/scholar/data/impact_factor/JCR_IF_2024.xlsx +0 -0
  290. scitex/scholar/data/impact_factor/JCR_IF_2024_v01.db +0 -0
  291. scitex/scholar/data/impact_factor.db +0 -0
  292. scitex/scholar/examples/SUGGESTIONS.md +0 -865
  293. scitex/scholar/examples/dev.py +0 -38
  294. scitex-2.14.0.dist-info/METADATA +0 -1238
  295. /scitex/{gen → context}/_detect_environment.py +0 -0
  296. /scitex/{gen → context}/_get_notebook_path.py +0 -0
  297. /scitex/{gen/_shell.py → sh/_shell_legacy.py} +0 -0
  298. {scitex-2.14.0.dist-info → scitex-2.15.2.dist-info}/WHEEL +0 -0
  299. {scitex-2.14.0.dist-info → scitex-2.15.2.dist-info}/entry_points.txt +0 -0
  300. {scitex-2.14.0.dist-info → scitex-2.15.2.dist-info}/licenses/LICENSE +0 -0
scitex/dev/plt/data/mpl/PLOTTING_FUNCTIONS.yaml DELETED
@@ -1,90 +0,0 @@
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- # Timestamp: "2025-12-21 12:37:14 (ywatanabe)"
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- # File: ./src/scitex/dev/plt/data/mpl/PLOTTING_FUNCTIONS.yaml
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-
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- basic:
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- - plot # Line/marker plots
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- - scatter # Scatter plots
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- - bar # Vertical bar charts
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- - barh # Horizontal bar charts
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- - stem # Stem plots
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- - step # Step plots
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- - fill # Filled polygons
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- - fill_between # Fill between y-values
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- - fill_betweenx # Fill between x-values
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-
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- statistical:
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- - hist # Histogram
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- - hist2d # 2D histogram
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- - boxplot # Box and whisker plots
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- - bxp # Box plot from precomputed stats
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- - violinplot # Violin plots
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- - violin # Single violin
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- - errorbar # Error bar plots
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- - pie # Pie charts
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- - ecdf # Empirical cumulative distribution
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-
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- image:
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- - imshow # Display image/array
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- - matshow # Display matrix
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- - pcolor # Pseudocolor plot
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- - pcolormesh # Pseudocolor mesh (faster)
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- - pcolorfast # Pseudocolor (fastest)
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- - contour # Contour lines
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- - contourf # Filled contours
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- - hexbin # Hexagonal binning
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- - spy # Sparsity pattern
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-
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- vector:
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- - quiver # Arrow/vector field
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- - streamplot # Streamlines
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- - barbs # Wind barbs
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-
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- spectral:
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- - specgram # Spectrogram
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- - psd # Power spectral density
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- - csd # Cross spectral density
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- - cohere # Coherence
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- - acorr # Autocorrelation
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- - xcorr # Cross-correlation
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- - angle_spectrum # Phase angle spectrum
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- - magnitude_spectrum # Magnitude spectrum
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- - phase_spectrum # Phase spectrum
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-
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- triangulation:
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- - tricontour # Triangular contour lines
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- - tricontourf # Triangular filled contours
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- - tripcolor # Triangular pseudocolor
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- - triplot # Triangular grid lines
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-
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- composite:
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- - stackplot # Stacked area plots
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- - stairs # Stair/step plots
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- - eventplot # Event sequence plots
63
- - broken_barh # Broken horizontal bars
64
-
65
- log_scale:
66
- - loglog # Log-log scale plot
67
- - semilogx # Semi-log x scale
68
- - semilogy # Semi-log y scale
69
-
70
- annotation:
71
- - annotate # Text with arrow annotation
72
- - text # Text at position
73
- - arrow # Arrow patch
74
- - axhline # Horizontal line across axes
75
- - axvline # Vertical line across axes
76
- - hlines # Horizontal lines at y positions
77
- - vlines # Vertical lines at x positions
78
- - axhspan # Horizontal span (shaded region)
79
- - axvspan # Vertical span (shaded region)
80
- - axline # Infinite line
81
-
82
- decoration:
83
- - legend # Add legend
84
- - grid # Add grid
85
- - table # Add table
86
- - clabel # Contour labels
87
- - bar_label # Bar chart labels
88
- - quiverkey # Quiver key/legend
89
-
90
- # EOF