Merge branch 'main' into haesleinhuepf-patch-6

ScaDS · Jul 15, 2024 · e406ced · e406ced
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diff --git a/_toc.yml b/_toc.yml
@@ -82,6 +82,15 @@ parts:
   - caption: Wednesday
     chapters:
     - file: day3.1_explorative_data_science/readme.md
+      sections:
+      - file:  day3.1_explorative_data_science/0_raw_data_preparation.ipynb
+      - file:  day3.1_explorative_data_science/1_data_prep_segment_dapi_batch_process.ipynb
+      - file:  day3.1_explorative_data_science/2_data_prep_segment_actin_batch_process.ipynb
+      - file:  day3.1_explorative_data_science/3_data_prep_segment_tubulin_batch_process.ipynb
+      - file:  day3.1_explorative_data_science/4_data_prep_quantitative_measurements_extraction.ipynb
+      - file:  day3.1_explorative_data_science/5_Interactive_features_exploration_dim_red_one_compound.ipynb
+      - file:  day3.1_explorative_data_science/6_Interactive_dim_red_and_clustering_comparing_compounds.ipynb
+
     - file: day3.2_data_visualization/readme.md
     - file: day3.3a_basic_plotting/readme.md
       sections: 

diff --git a/day0_preparation/BIDS_Introduction_2024.pdf b/day0_preparation/BIDS_Introduction_2024.pdf
diff --git a/day0_preparation/BIDS_farewell_2024.pdf b/day0_preparation/BIDS_farewell_2024.pdf
diff --git a/day2.3_machine_learning/readme.md b/day2.3_machine_learning/readme.md
@@ -1,3 +1,6 @@
 # Machine Learning
 
 In this session we will use machine learning techniques, random forest classifiers in particular, to classify pixels, segment objects and classify them.
+
+You can download the slides [here](Machine_Learning.pdf).
+
diff --git a/day3.1_explorative_data_science/0_raw_data_preparation.ipynb b/day3.1_explorative_data_science/0_raw_data_preparation.ipynb
diff --git a/day3.1_explorative_data_science/1_data_prep_segment_dapi_batch_process.ipynb b/day3.1_explorative_data_science/1_data_prep_segment_dapi_batch_process.ipynb
diff --git a/day3.1_explorative_data_science/2_data_prep_segment_actin_batch_process.ipynb b/day3.1_explorative_data_science/2_data_prep_segment_actin_batch_process.ipynb
diff --git a/day3.1_explorative_data_science/3_data_prep_segment_tubulin_batch_process.ipynb b/day3.1_explorative_data_science/3_data_prep_segment_tubulin_batch_process.ipynb
diff --git a/day3.1_explorative_data_science/4_data_prep_quantitative_measurements_extraction.ipynb b/day3.1_explorative_data_science/4_data_prep_quantitative_measurements_extraction.ipynb
diff --git a/....1_explorative_data_science/5_Interactive_features_exploration_dim_red_one_compound.ipynb b/....1_explorative_data_science/5_Interactive_features_exploration_dim_red_one_compound.ipynb