chatspatial 1.1.0__py3-none-any.whl

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Files changed (67) hide show
  1. chatspatial/__init__.py +11 -0
  2. chatspatial/__main__.py +141 -0
  3. chatspatial/cli/__init__.py +7 -0
  4. chatspatial/config.py +53 -0
  5. chatspatial/models/__init__.py +85 -0
  6. chatspatial/models/analysis.py +513 -0
  7. chatspatial/models/data.py +2462 -0
  8. chatspatial/server.py +1763 -0
  9. chatspatial/spatial_mcp_adapter.py +720 -0
  10. chatspatial/tools/__init__.py +3 -0
  11. chatspatial/tools/annotation.py +1903 -0
  12. chatspatial/tools/cell_communication.py +1603 -0
  13. chatspatial/tools/cnv_analysis.py +605 -0
  14. chatspatial/tools/condition_comparison.py +595 -0
  15. chatspatial/tools/deconvolution/__init__.py +402 -0
  16. chatspatial/tools/deconvolution/base.py +318 -0
  17. chatspatial/tools/deconvolution/card.py +244 -0
  18. chatspatial/tools/deconvolution/cell2location.py +326 -0
  19. chatspatial/tools/deconvolution/destvi.py +144 -0
  20. chatspatial/tools/deconvolution/flashdeconv.py +101 -0
  21. chatspatial/tools/deconvolution/rctd.py +317 -0
  22. chatspatial/tools/deconvolution/spotlight.py +216 -0
  23. chatspatial/tools/deconvolution/stereoscope.py +109 -0
  24. chatspatial/tools/deconvolution/tangram.py +135 -0
  25. chatspatial/tools/differential.py +625 -0
  26. chatspatial/tools/embeddings.py +298 -0
  27. chatspatial/tools/enrichment.py +1863 -0
  28. chatspatial/tools/integration.py +807 -0
  29. chatspatial/tools/preprocessing.py +723 -0
  30. chatspatial/tools/spatial_domains.py +808 -0
  31. chatspatial/tools/spatial_genes.py +836 -0
  32. chatspatial/tools/spatial_registration.py +441 -0
  33. chatspatial/tools/spatial_statistics.py +1476 -0
  34. chatspatial/tools/trajectory.py +495 -0
  35. chatspatial/tools/velocity.py +405 -0
  36. chatspatial/tools/visualization/__init__.py +155 -0
  37. chatspatial/tools/visualization/basic.py +393 -0
  38. chatspatial/tools/visualization/cell_comm.py +699 -0
  39. chatspatial/tools/visualization/cnv.py +320 -0
  40. chatspatial/tools/visualization/core.py +684 -0
  41. chatspatial/tools/visualization/deconvolution.py +852 -0
  42. chatspatial/tools/visualization/enrichment.py +660 -0
  43. chatspatial/tools/visualization/integration.py +205 -0
  44. chatspatial/tools/visualization/main.py +164 -0
  45. chatspatial/tools/visualization/multi_gene.py +739 -0
  46. chatspatial/tools/visualization/persistence.py +335 -0
  47. chatspatial/tools/visualization/spatial_stats.py +469 -0
  48. chatspatial/tools/visualization/trajectory.py +639 -0
  49. chatspatial/tools/visualization/velocity.py +411 -0
  50. chatspatial/utils/__init__.py +115 -0
  51. chatspatial/utils/adata_utils.py +1372 -0
  52. chatspatial/utils/compute.py +327 -0
  53. chatspatial/utils/data_loader.py +499 -0
  54. chatspatial/utils/dependency_manager.py +462 -0
  55. chatspatial/utils/device_utils.py +165 -0
  56. chatspatial/utils/exceptions.py +185 -0
  57. chatspatial/utils/image_utils.py +267 -0
  58. chatspatial/utils/mcp_utils.py +137 -0
  59. chatspatial/utils/path_utils.py +243 -0
  60. chatspatial/utils/persistence.py +78 -0
  61. chatspatial/utils/scipy_compat.py +143 -0
  62. chatspatial-1.1.0.dist-info/METADATA +242 -0
  63. chatspatial-1.1.0.dist-info/RECORD +67 -0
  64. chatspatial-1.1.0.dist-info/WHEEL +5 -0
  65. chatspatial-1.1.0.dist-info/entry_points.txt +2 -0
  66. chatspatial-1.1.0.dist-info/licenses/LICENSE +21 -0
  67. chatspatial-1.1.0.dist-info/top_level.txt +1 -0
chatspatial/tools/__init__.py ADDED
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+ """
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+ Tools for spatial transcriptomics data analysis.
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+ """