Update README.md

README.md

@@ -12,70 +12,72 @@ tags:
 pretty_name: Hackett, 2020 Overexpression
 size_categories:
 - 1M<n<10M
-dataset_info:
-  features:
-    - name: regulator_locus_tag
-      dtype: string
-      description: induced transcriptional regulator systematic ID. See hf/BrentLab/yeast_genome_resources
-    - name: regulator_symbol
-      dtype: string
-      description: induced transcriptional regulator common name. If no common name exists, then the `regulator_locus_tag` is used.
-    - name: target_locus_tag
-      dtype: string
-      description: The systematic ID of the feature to which the effect/pvalue is assigned. See hf/BrentLab/yeast_genome_resources
-    - name: target_symbol
-      dtype: string
-      description: The common name of the feature to which the effect/pvalue is assigned. If there is no common name, the `target_locus_tag` is used.
-    - name: time
-      dtype: float
-      description: time point (minutes)
-    - name: mechanism
-      dtype:
-        class_label:
-          names: ["GEV", "ZEV"]
-      description: induction system (GEV or ZEV)
-    - name: restriction
-      dtype:
-        class_label:
-          names: ["M", "N", "P"]
-      description: nutrient limitation (M, N or P)
-    - name: date
-      dtype: string
-      description: date performed
-    - name: strain
-      dtype: string
-      description: strain name
-    - name: green_median
-      dtype: float
-      description: median of green (reference) channel fluorescence
-    - name: red_median
-      dtype: float
-      description: median of red (experimental) channel fluorescence
-    - name: log2_ratio
-      dtype: float
-      description: log2(red / green) subtracting value at time zero
-    - name: log2_cleaned_ratio
-      dtype: float
-      description: Non-specific stress response and prominent outliers removed
-    - name: log2_noise_model
-      dtype: float
-      description: estimated noise standard deviation
-    - name: log2_cleaned_ratio_zth2d
-      dtype: float
-      description: cleaned timecourses hard-thresholded based on multiple observations (or last observation) passing the noise model
-    - name: log2_selected_timecourses
-      dtype: float
-      description: cleaned timecourses hard-thresholded based on single observations passing noise model and impulse evaluation of biological feasibility
-    - name: log2_shrunken_timecourses
-      dtype: float
-      description: selected timecourses with observation-level shrinkage based on local FDR (false discovery rate). Most users of the data will want to use this column.
 configs:
   - config_name: hackett_2020
     description: TF overexpression data from Hackett 2020
     default: true
+    dataset_type: annotated_features
+    metadata_fields: ["regulator_locus_tag", "regulator_symbol", "time", "mechanism", "restriction", "date", "strain"]
     data_files:
       - split: train
         path: hackett_2020.parquet
+    dataset_info:
+      features:
+        - name: regulator_locus_tag
+          dtype: string
+          description: induced transcriptional regulator systematic ID. See hf/BrentLab/yeast_genome_resources
+        - name: regulator_symbol
+          dtype: string
+          description: induced transcriptional regulator common name. If no common name exists, then the `regulator_locus_tag` is used.
+        - name: target_locus_tag
+          dtype: string
+          description: The systematic ID of the feature to which the effect/pvalue is assigned. See hf/BrentLab/yeast_genome_resources
+        - name: target_symbol
+          dtype: string
+          description: The common name of the feature to which the effect/pvalue is assigned. If there is no common name, the `target_locus_tag` is used.
+        - name: time
+          dtype: float
+          description: time point (minutes)
+        - name: mechanism
+          dtype:
+            class_label:
+              names: ["GEV", "ZEV"]
+          description: induction system (GEV or ZEV)
+        - name: restriction
+          dtype:
+            class_label:
+              names: ["M", "N", "P"]
+          description: nutrient limitation (M, N or P)
+        - name: date
+          dtype: string
+          description: date performed
+        - name: strain
+          dtype: string
+          description: strain name
+        - name: green_median
+          dtype: float
+          description: median of green (reference) channel fluorescence
+        - name: red_median
+          dtype: float
+          description: median of red (experimental) channel fluorescence
+        - name: log2_ratio
+          dtype: float
+          description: log2(red / green) subtracting value at time zero
+        - name: log2_cleaned_ratio
+          dtype: float
+          description: Non-specific stress response and prominent outliers removed
+        - name: log2_noise_model
+          dtype: float
+          description: estimated noise standard deviation
+        - name: log2_cleaned_ratio_zth2d
+          dtype: float
+          description: cleaned timecourses hard-thresholded based on multiple observations (or last observation) passing the noise model
+        - name: log2_selected_timecourses
+          dtype: float
+          description: cleaned timecourses hard-thresholded based on single observations passing noise model and impulse evaluation of biological feasibility
+        - name: log2_shrunken_timecourses
+          dtype: float
+          description: selected timecourses with observation-level shrinkage based on local FDR (false discovery rate). Most users of the data will want to use this column.
 ---
 # Hackett 2020