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README.md

@@ -1,104 +1,77 @@
 ---
-dataset_info:
-- config_name: challenge_test_sequences
-  features:
-  - name: sequence
-    dtype: string
-  - name: sequence_length
-    dtype: int32
-  - name: source_file
-    dtype: string
-  - name: row_id
-    dtype: int64
-  splits:
-  - name: train
-    num_bytes: 10523244
-    num_examples: 71103
-  download_size: 1977625
-  dataset_size: 10523244
-- config_name: public_leaderboard_ids
-  features:
-  - name: subset
-    dtype: string
-  - name: item_id
-    dtype: string
-  - name: row_id
-    dtype: int64
-  - name: source_member
-    dtype: string
-  - name: line_number
-    dtype: int64
-  - name: raw_line
-    dtype: string
-  splits:
-  - name: train
-    num_bytes: 846652
-    num_examples: 10
-  download_size: 577419
-  dataset_size: 846652
-- config_name: supervised
-  features:
-  - name: sequence
-    dtype: string
-  - name: activity
-    dtype: float32
-  - name: sequence_length
-    dtype: int32
-  - name: source_file
-    dtype: string
-  - name: row_id
-    dtype: int64
-  splits:
-  - name: train
-    num_bytes: 865492987
-    num_examples: 6065325
-  - name: validation
-    num_bytes: 94817770
-    num_examples: 673925
-  - name: test
-    num_bytes: 12656334
-    num_examples: 71103
-  download_size: 347068682
-  dataset_size: 972967091
-- config_name: test_subset_membership
-  features:
-  - name: subset
-    dtype: string
-  - name: item_id
-    dtype: string
-  - name: row_id
-    dtype: int64
-  - name: source_member
-    dtype: string
-  - name: line_number
-    dtype: int64
-  - name: raw_line
-    dtype: string
-  splits:
-  - name: train
-    num_bytes: 22422882
-    num_examples: 63683
-  download_size: 4264569
-  dataset_size: 22422882
-configs:
-- config_name: challenge_test_sequences
-  data_files:
-  - split: train
-    path: challenge_test_sequences/train-*
-- config_name: public_leaderboard_ids
-  data_files:
-  - split: train
-    path: public_leaderboard_ids/train-*
-- config_name: supervised
-  data_files:
-  - split: train
-    path: supervised/train-*
-  - split: validation
-    path: supervised/validation-*
-  - split: test
-    path: supervised/test-*
-- config_name: test_subset_membership
-  data_files:
-  - split: train
-    path: test_subset_membership/train-*
+license: cc-by-4.0
+task_categories:
+- text-regression
+language:
+- en
+tags:
+- biology
+- dna
+- genomics
+- promoter
+- gene-expression
+- carbon
 ---
+
+# Random Promoter DREAM Challenge 2022
+
+This dataset repackages the processed Random Promoter DREAM Challenge 2022
+files from Zenodo record `10633252` for use with `datasets`.
+
+The task is sequence-to-expression regression on synthetic yeast promoter
+sequences. The canonical supervised config contains random promoter training
+examples, validation examples, and labeled designed test promoters.
+
+## Configs
+
+- `supervised`: `train`, `validation`, and `test` splits with promoter
+  sequences and measured activity.
+- `challenge_test_sequences`: unlabeled test sequences for submission-style
+  prediction workflows.
+- `test_subset_membership`: normalized IDs from `test_subset_ids.tar.gz`.
+- `public_leaderboard_ids`: normalized IDs from `public_leaderboard_ids.tar.gz`.
+
+## Schema
+
+`supervised`:
+
+- `sequence`: DNA sequence.
+- `activity`: measured promoter activity.
+- `sequence_length`: sequence length in base pairs.
+- `source_file`: source filename.
+- `row_id`: zero-based row index within the source split.
+
+ID metadata configs:
+
+- `subset`: subset name inferred from the archive member.
+- `item_id`: raw ID token from the source line.
+- `row_id`: integer row ID when `item_id` is numeric; otherwise `-1`.
+- `source_member`: archive member path.
+- `line_number`: line number within the member.
+- `raw_line`: unmodified stripped source line.
+
+## Usage
+
+```py
+from datasets import load_dataset
+
+ds = load_dataset("HuggingFaceBio/random-promoter-dream-2022", "supervised")
+train = ds["train"]
+validation = ds["validation"]
+test = ds["test"]
+
+subsets = load_dataset("HuggingFaceBio/random-promoter-dream-2022", "test_subset_membership", split="train")
+```
+
+## Source
+
+Source: Random Promoter DREAM Challenge 2022, Zenodo DOI
+`10.5281/zenodo.10633252`.
+
+The source record is licensed CC BY 4.0. Cite the original DREAM Challenge data
+and paper when using this dataset.
+
+## Reproduction
+
+This dataset repo includes `create_dataset.py`, the script used to download,
+convert, and upload the configs.