Update README.md

README.md

@@ -110,7 +110,7 @@ processed-data/
 Note: `percentage` is the parameter passed for the percentage of the data to use for training; in this case, `percentage = 80`.
 
 ### Data Instances
-Percentage is the proportion of data that will be used for training (i.e. data_{percentage}p_TRAINING.tsv.gz). In case the percentage is smaller than 100, the remaining proportion of the dataset is stored in data{percentage}p_ALL_NON_TRAIN.tsv.gz and a subset of this in data_{percentage}p_NON_OVERLAP.tsv.gz. Each of this files corresponds to a 
+Percentage is the proportion of data that will be used for training (i.e. data_{percentage}p_TRAINING.tsv.gz). In case the percentage is smaller than 100, the remaining proportion of the dataset is stored in data{percentage}p_ALL_NON_TRAIN.tsv.gz and a subset of this in data_{percentage}p_NON_OVERLAP.tsv.gz. All files follow the same structure.
 
 <!--
 Describe data files
@@ -120,7 +120,7 @@ Ex: All images are named <img_id>.png, each within a folder named for the specie
 
 ### Data Fields
 
-**data_{percentage}p_TRAINING.tsv.gz**: [ADD SUMMARY HERE + descriptions of columns below]
+**data_{percentage}p_TRAINING.tsv.gz**: Collection of pairs of trait descriptors (i.e. `desc_1`, `desc_2`) along with corresponding ontology-based similarity metric (i.e. `maxIC`, `jaccard`, `simGIC`). Each pair of trait descriptors has a corresponding pair of identifiers (i.e. `id_1`, `id_2`) in [Phenoscape](https://kb.phenoscape.org/). The columns `character_1` and `character_2` correspond to [evolutionary characters](https://en.wikipedia.org/wiki/Character_evolution) for which the trait descriptions are states. These are used to split the dataset into disjoint train/test sets.
   - `id_1`: Phenoscape identifier for trait 1
   - `id_2`: Phenoscape identifier for trait 2
   - `maxIC`: Ontology-based similarity measure 
@@ -132,12 +132,11 @@ Ex: All images are named <img_id>.png, each within a folder named for the specie
   - `character_2`: Varying character for trait 2
   - `desc_2`: Textual trait description 2
 
-Note: (`id_1`, `character_1`, `desc_1`) are not fixed. 
+Notes: (`id_1`, `character_1`, `desc_1`) are not fixed; `order` column will be removed in a future version.
 
 ### Data Splits
+`data_{percentage}p_TRAINING.tsv.gz` is split into a proper training set and a proper testing set in the [train_model.py](https://github.com/Imageomics/char-sim/blob/feature/no-ref/ablations/train_model.py) file. 
 
-- Train: `data_{percentage}p_TRAINING.tsv.gz`
-- Test: `data_{percentage}p_NON_OVERLAP.tsv.gz`
 
 ## Dataset Creation