Update README.md

README.md

@@ -25,7 +25,9 @@ configs:
       features:
         - name: sample_id
           dtype: integer
-          description: unique identifier for a specific sample. The sample ID identifies a unique (regulator_locus_tag, time, mechanism, restriction, date, strain) tuple.
+          description: >-
+            unique identifier for a specific sample. The sample ID identifies a unique
+            (regulator_locus_tag, time, mechanism, restriction, date, strain) tuple.
         - name: db_id
           dtype: integer
           description: >-
@@ -34,59 +36,91 @@ configs:
             included in the original DB.
         - name: regulator_locus_tag
           dtype: string
-          description: induced transcriptional regulator systematic ID. See hf/BrentLab/yeast_genome_resources
+          description: >-
+            induced transcriptional regulator systematic ID.
+            See hf/BrentLab/yeast_genome_resources
+          role: regulator_identifier
         - name: regulator_symbol
           dtype: string
-          description: induced transcriptional regulator common name. If no common name exists, then the `regulator_locus_tag` is used.
+          description: >-
+            induced transcriptional regulator common name. If no common name exists,
+            then the `regulator_locus_tag` is used.
+          role: regulator_identifier
         - 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
+          description: >-
+            The systematic ID of the feature to which the effect/pvalue is assigned.
+            See hf/BrentLab/yeast_genome_resources
+          role: target_identifier
         - 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.
+          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.
+          role: target_identifier
         - name: time
           dtype: float
           description: time point (minutes)
+          role: experimental_condition
         - name: mechanism
           dtype:
             class_label:
               names: ["GEV", "ZEV"]
           description: induction system (GEV or ZEV)
+          role: experimental_condition
         - name: restriction
           dtype:
             class_label:
               names: ["M", "N", "P"]
           description: nutrient limitation (M, N or P)
+          role: experimental_condition
         - name: date
           dtype: string
           description: date performed
+          role: experimental_condition
         - name: strain
           dtype: string
           description: strain name
+          role: experimental_condition
         - name: green_median
           dtype: float
           description: median of green (reference) channel fluorescence
+          role: quantitative_measure
         - name: red_median
           dtype: float
           description: median of red (experimental) channel fluorescence
+          role: quantitative_measure
         - name: log2_ratio
           dtype: float
           description: log2(red / green) subtracting value at time zero
+          role: quantitative_measure
         - name: log2_cleaned_ratio
           dtype: float
           description: Non-specific stress response and prominent outliers removed
+          role: quantitative_measure
         - name: log2_noise_model
           dtype: float
           description: estimated noise standard deviation
+          role: quantitative_measure
         - name: log2_cleaned_ratio_zth2d
           dtype: float
-          description: cleaned timecourses hard-thresholded based on multiple observations (or last observation) passing the noise model
+          description: >-
+            cleaned timecourses hard-thresholded based on
+            multiple observations (or last observation) passing the noise model
+          role: quantitative_measure
         - name: log2_selected_timecourses
           dtype: float
-          description: cleaned timecourses hard-thresholded based on single observations passing noise model and impulse evaluation of biological feasibility
+          description: >-
+            cleaned timecourses hard-thresholded based on single observations
+            passing noise model and impulse evaluation of biological feasibility
+          role: quantitative_measure
         - 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.
+          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.
+          role: quantitative_measure
 ---
 # Hackett 2020