spacr 0.9.25__tar.gz → 0.9.26__tar.gz

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 (370) hide show
  1. {spacr-0.9.25/spacr.egg-info → spacr-0.9.26}/PKG-INFO +5 -2
  2. {spacr-0.9.25 → spacr-0.9.26}/README.rst +4 -1
  3. {spacr-0.9.25 → spacr-0.9.26}/setup.py +1 -1
  4. {spacr-0.9.25 → spacr-0.9.26/spacr.egg-info}/PKG-INFO +5 -2
  5. {spacr-0.9.25 → spacr-0.9.26}/LICENSE +0 -0
  6. {spacr-0.9.25 → spacr-0.9.26}/MANIFEST.in +0 -0
  7. {spacr-0.9.25 → spacr-0.9.26}/deploy_docs.sh +0 -0
  8. {spacr-0.9.25 → spacr-0.9.26}/docs/.doctrees/environment.pickle +0 -0
  9. {spacr-0.9.25 → spacr-0.9.26}/docs/_images/logo_spacr.png +0 -0
  10. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/SetupDict.html +0 -0
  11. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/core/BasePredictor.html +0 -0
  12. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/core/BaseTrainer.html +0 -0
  13. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/core/Baseline/Predictor.html +0 -0
  14. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/core/Baseline/Trainer.html +0 -0
  15. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/core/Baseline/utils.html +0 -0
  16. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/core/MEDIAR/EnsemblePredictor.html +0 -0
  17. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/core/MEDIAR/Predictor.html +0 -0
  18. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/core/MEDIAR/Trainer.html +0 -0
  19. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/core/MEDIAR/utils.html +0 -0
  20. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/core/utils.html +0 -0
  21. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/evaluate.html +0 -0
  22. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/generate_mapping.html +0 -0
  23. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/index.html +0 -0
  24. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/main.html +0 -0
  25. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/predict.html +0 -0
  26. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/app_annotate.html +0 -0
  27. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/app_classify.html +0 -0
  28. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/app_make_masks.html +0 -0
  29. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/app_mask.html +0 -0
  30. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/app_measure.html +0 -0
  31. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/app_sequencing.html +0 -0
  32. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/app_umap.html +0 -0
  33. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/chat_bot.html +0 -0
  34. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/core.html +0 -0
  35. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/deep_spacr.html +0 -0
  36. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/gui.html +0 -0
  37. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/gui_core.html +0 -0
  38. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/gui_elements.html +0 -0
  39. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/gui_utils.html +0 -0
  40. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/io.html +0 -0
  41. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/logger.html +0 -0
  42. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/measure.html +0 -0
  43. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/mediar.html +0 -0
  44. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/ml.html +0 -0
  45. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/plot.html +0 -0
  46. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/sequencing.html +0 -0
  47. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/settings.html +0 -0
  48. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/sim.html +0 -0
  49. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/sp_stats.html +0 -0
  50. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/spacr_cellpose.html +0 -0
  51. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/submodules.html +0 -0
  52. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/timelapse.html +0 -0
  53. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/toxo.html +0 -0
  54. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/utils.html +0 -0
  55. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/spacr/version.html +0 -0
  56. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/train_tools/data_utils/custom/CellAware.html +0 -0
  57. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/train_tools/data_utils/custom/LoadImage.html +0 -0
  58. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/train_tools/data_utils/custom/NormalizeImage.html +0 -0
  59. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/train_tools/data_utils/datasetter.html +0 -0
  60. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/train_tools/data_utils/transforms.html +0 -0
  61. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/train_tools/data_utils/utils.html +0 -0
  62. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/train_tools/measures.html +0 -0
  63. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/train_tools/models/MEDIARFormer.html +0 -0
  64. {spacr-0.9.25 → spacr-0.9.26}/docs/_modules/train_tools/utils.html +0 -0
  65. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/SetupDict/index.rst.txt +0 -0
  66. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/core/BasePredictor/index.rst.txt +0 -0
  67. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/core/BaseTrainer/index.rst.txt +0 -0
  68. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/core/Baseline/Predictor/index.rst.txt +0 -0
  69. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/core/Baseline/Trainer/index.rst.txt +0 -0
  70. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/core/Baseline/index.rst.txt +0 -0
  71. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/core/Baseline/utils/index.rst.txt +0 -0
  72. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/core/MEDIAR/EnsemblePredictor/index.rst.txt +0 -0
  73. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/core/MEDIAR/Predictor/index.rst.txt +0 -0
  74. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/core/MEDIAR/Trainer/index.rst.txt +0 -0
  75. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/core/MEDIAR/index.rst.txt +0 -0
  76. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/core/MEDIAR/utils/index.rst.txt +0 -0
  77. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/core/index.rst.txt +0 -0
  78. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/core/utils/index.rst.txt +0 -0
  79. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/evaluate/index.rst.txt +0 -0
  80. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/generate_mapping/index.rst.txt +0 -0
  81. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/index.rst.txt +0 -0
  82. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/main/index.rst.txt +0 -0
  83. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/predict/index.rst.txt +0 -0
  84. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/app_annotate/index.rst.txt +0 -0
  85. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/app_classify/index.rst.txt +0 -0
  86. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/app_make_masks/index.rst.txt +0 -0
  87. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/app_mask/index.rst.txt +0 -0
  88. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/app_measure/index.rst.txt +0 -0
  89. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/app_sequencing/index.rst.txt +0 -0
  90. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/app_umap/index.rst.txt +0 -0
  91. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/chat_bot/index.rst.txt +0 -0
  92. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/core/index.rst.txt +0 -0
  93. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/deep_spacr/index.rst.txt +0 -0
  94. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/gui/index.rst.txt +0 -0
  95. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/gui_core/index.rst.txt +0 -0
  96. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/gui_elements/index.rst.txt +0 -0
  97. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/gui_utils/index.rst.txt +0 -0
  98. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/index.rst.txt +0 -0
  99. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/io/index.rst.txt +0 -0
  100. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/logger/index.rst.txt +0 -0
  101. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/measure/index.rst.txt +0 -0
  102. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/mediar/index.rst.txt +0 -0
  103. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/ml/index.rst.txt +0 -0
  104. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/openai/index.rst.txt +0 -0
  105. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/plot/index.rst.txt +0 -0
  106. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/sequencing/index.rst.txt +0 -0
  107. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/settings/index.rst.txt +0 -0
  108. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/sim/index.rst.txt +0 -0
  109. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/sp_stats/index.rst.txt +0 -0
  110. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/spacr_cellpose/index.rst.txt +0 -0
  111. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/submodules/index.rst.txt +0 -0
  112. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/timelapse/index.rst.txt +0 -0
  113. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/toxo/index.rst.txt +0 -0
  114. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/utils/index.rst.txt +0 -0
  115. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/spacr/version/index.rst.txt +0 -0
  116. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/train_tools/data_utils/custom/CellAware/index.rst.txt +0 -0
  117. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/train_tools/data_utils/custom/LoadImage/index.rst.txt +0 -0
  118. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/train_tools/data_utils/custom/NormalizeImage/index.rst.txt +0 -0
  119. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/train_tools/data_utils/custom/index.rst.txt +0 -0
  120. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/train_tools/data_utils/datasetter/index.rst.txt +0 -0
  121. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/train_tools/data_utils/index.rst.txt +0 -0
  122. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/train_tools/data_utils/transforms/index.rst.txt +0 -0
  123. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/train_tools/data_utils/utils/index.rst.txt +0 -0
  124. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/train_tools/index.rst.txt +0 -0
  125. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/train_tools/measures/index.rst.txt +0 -0
  126. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/train_tools/models/MEDIARFormer/index.rst.txt +0 -0
  127. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/train_tools/models/index.rst.txt +0 -0
  128. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/api/train_tools/utils/index.rst.txt +0 -0
  129. {spacr-0.9.25 → spacr-0.9.26}/docs/_sources/index.rst.txt +0 -0
  130. {spacr-0.9.25 → spacr-0.9.26}/docs/_static/basic.css +0 -0
  131. {spacr-0.9.25 → spacr-0.9.26}/docs/_static/css/badge_only.css +0 -0
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  367. {spacr-0.9.25 → spacr-0.9.26}/spacr.egg-info/dependency_links.txt +0 -0
  368. {spacr-0.9.25 → spacr-0.9.26}/spacr.egg-info/entry_points.txt +0 -0
  369. {spacr-0.9.25 → spacr-0.9.26}/spacr.egg-info/requires.txt +0 -0
  370. {spacr-0.9.25 → spacr-0.9.26}/spacr.egg-info/top_level.txt +0 -0
{spacr-0.9.25/spacr.egg-info → spacr-0.9.26}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.1
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  Name: spacr
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- Version: 0.9.25
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+ Version: 0.9.26
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  Summary: Spatial phenotype analysis of crisp screens (SpaCr)
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  Home-page: https://github.com/EinarOlafsson/spacr
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  Author: Einar Birnir Olafsson
@@ -167,7 +167,10 @@ Data Availability
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  - **Raw sequencing data** are available from NCBI BioProject `PRJNA1261935 <https://www.ncbi.nlm.nih.gov/bioproject/PRJNA1261935>`_ and SRA accessions: `SRR33531217 <https://www.ncbi.nlm.nih.gov/sra/SRR33531217>`_, `SRR33531218 <https://www.ncbi.nlm.nih.gov/sra/SRR33531218>`_, `SRR33531219 <https://www.ncbi.nlm.nih.gov/sra/SRR33531219>`_, `SRR33531220 <https://www.ncbi.nlm.nih.gov/sra/SRR33531220>`_
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- - **Image data** is deposited at EBI BioStudies under accession: `S-BIAD2076 <https://www.ebi.ac.uk/biostudies/bioimages/studies/S-BIAD2076>`_
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+ - **Image data** is deposited at EBI BioStudies under accession:
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+ `S-BIAD2076 <https://www.ebi.ac.uk/biostudies/studies/S-BIAD2076>`_
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+ *(If the link redirects to the main BioStudies portal, copy and paste it directly into your browser.)*
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  Example Notebooks
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  -----------------
{spacr-0.9.25 → spacr-0.9.26}/README.rst RENAMED
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  - **Raw sequencing data** are available from NCBI BioProject `PRJNA1261935 <https://www.ncbi.nlm.nih.gov/bioproject/PRJNA1261935>`_ and SRA accessions: `SRR33531217 <https://www.ncbi.nlm.nih.gov/sra/SRR33531217>`_, `SRR33531218 <https://www.ncbi.nlm.nih.gov/sra/SRR33531218>`_, `SRR33531219 <https://www.ncbi.nlm.nih.gov/sra/SRR33531219>`_, `SRR33531220 <https://www.ncbi.nlm.nih.gov/sra/SRR33531220>`_
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- - **Image data** is deposited at EBI BioStudies under accession: `S-BIAD2076 <https://www.ebi.ac.uk/biostudies/bioimages/studies/S-BIAD2076>`_
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+ - **Image data** is deposited at EBI BioStudies under accession:
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+ `S-BIAD2076 <https://www.ebi.ac.uk/biostudies/studies/S-BIAD2076>`_
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+ *(If the link redirects to the main BioStudies portal, copy and paste it directly into your browser.)*
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  Example Notebooks
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  -----------------
{spacr-0.9.25 → spacr-0.9.26}/setup.py RENAMED
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  'huggingface-hub>=0.24.0,<0.25'
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  ]
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- VERSION = "0.9.25"
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  setup(
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  name="spacr",
{spacr-0.9.25 → spacr-0.9.26/spacr.egg-info}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.1
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2
  Name: spacr
3
- Version: 0.9.25
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+ Version: 0.9.26
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4
  Summary: Spatial phenotype analysis of crisp screens (SpaCr)
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  Home-page: https://github.com/EinarOlafsson/spacr
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  Author: Einar Birnir Olafsson
@@ -167,7 +167,10 @@ Data Availability
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  - **Raw sequencing data** are available from NCBI BioProject `PRJNA1261935 <https://www.ncbi.nlm.nih.gov/bioproject/PRJNA1261935>`_ and SRA accessions: `SRR33531217 <https://www.ncbi.nlm.nih.gov/sra/SRR33531217>`_, `SRR33531218 <https://www.ncbi.nlm.nih.gov/sra/SRR33531218>`_, `SRR33531219 <https://www.ncbi.nlm.nih.gov/sra/SRR33531219>`_, `SRR33531220 <https://www.ncbi.nlm.nih.gov/sra/SRR33531220>`_
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- - **Image data** is deposited at EBI BioStudies under accession: `S-BIAD2076 <https://www.ebi.ac.uk/biostudies/bioimages/studies/S-BIAD2076>`_
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+ - **Image data** is deposited at EBI BioStudies under accession:
171
+ `S-BIAD2076 <https://www.ebi.ac.uk/biostudies/studies/S-BIAD2076>`_
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+ *(If the link redirects to the main BioStudies portal, copy and paste it directly into your browser.)*
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  Example Notebooks
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  -----------------
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