Rename dataset card to OmicsBench

README.md

@@ -12,16 +12,16 @@ tags:
   - mirbase
   - hmdb
   - card
-pretty_name: GenomicsBench Grader Databases
+pretty_name: OmicsBench Grader Databases
 size_categories:
   - 100M<n<1B
 ---
 
-# GenomicsBench Grader Databases
+# OmicsBench Grader Databases
 
-Synonym databases for deterministic grading in [GenomicsBench](https://github.com/AfterQuery/GenomicsBench), a realism-first benchmark for AI coding agents in computational biology.
+Synonym databases for deterministic grading in [OmicsBench](https://github.com/AfterQuery/OmicsBench), a realism-first benchmark for AI coding agents in computational biology.
 
-GenomicsBench ships with dozens of prebuilt graders for highly specific biological outputs. This dataset powers the synonym-aware matching behind those graders, so that *TP53* and *tumor protein p53* are recognized as the same gene, *hsa-miR-21-5p* and *MIMAT0000076* as the same miRNA, and *E. coli* and *Escherichia coli* as the same organism.
+OmicsBench ships with dozens of prebuilt graders for highly specific biological outputs. This dataset powers the synonym-aware matching behind those graders, so that *TP53* and *tumor protein p53* are recognized as the same gene, *hsa-miR-21-5p* and *MIMAT0000076* as the same miRNA, and *E. coli* and *Escherichia coli* as the same organism.
 
 ## Format
 
@@ -39,10 +39,10 @@ Three of the tables (`ncbi_taxonomy`, `hmdb`, `mirbase`) use `WITHOUT ROWID` wit
 
 ## Usage
 
-Install GenomicsBench and call the match functions directly; downloading and caching happens on first use.
+Install OmicsBench and call the match functions directly; downloading and caching happens on first use.
 
 ```python
-from genomicsbench.grading import (
+from omicsbench.grading import (
     gene_match,
     taxonomy_match,
     mirna_match,
@@ -57,20 +57,20 @@ metabolite_match("Dextrose", "D-Glucose")                         # True
 amr_match("mecA", "PBP2A")                                        # True
 ```
 
-Each match function is a thin wrapper over one indexed SQL query plus a case-insensitive string-equality fallback (used when either side is absent from the database, so misses don't crash on out-of-distribution inputs). The public API signatures, return types, and fallback semantics are unchanged from the previous TSV-backed release -- consumers upgrade by bumping their `genomicsbench` package version.
+Each match function is a thin wrapper over one indexed SQL query plus a case-insensitive string-equality fallback (used when either side is absent from the database, so misses don't crash on out-of-distribution inputs). The public API signatures, return types, and fallback semantics are unchanged from the previous TSV-backed release -- consumers upgrade by bumping their `omicsbench` package version.
 
-Each lookup module opens a thread-local read-only connection on first use with read-tuning PRAGMAs (`query_only=1`, `cache_size=-20000`, `temp_store=MEMORY`, `mmap_size=268435456`), so the dataset works correctly under multi-threaded consumers like the GenomicsBench async orchestrator. SQLite supports unlimited concurrent readers via shared file locks.
+Each lookup module opens a thread-local read-only connection on first use with read-tuning PRAGMAs (`query_only=1`, `cache_size=-20000`, `temp_store=MEMORY`, `mmap_size=268435456`), so the dataset works correctly under multi-threaded consumers like the OmicsBench async orchestrator. SQLite supports unlimited concurrent readers via shared file locks.
 
 ## Direct access
 
-If you want to query the tables yourself without installing GenomicsBench, open the file read-only:
+If you want to query the tables yourself without installing OmicsBench, open the file read-only:
 
 ```python
 import sqlite3
 from huggingface_hub import hf_hub_download
 
 path = hf_hub_download(
-    repo_id="AfterQuery/GenomicsBench-grader-databases",
+    repo_id="AfterQuery/OmicsBench-grader-databases",
     filename="grader_databases.sqlite",
     repo_type="dataset",
 )
@@ -87,6 +87,6 @@ All lookup columns are pre-lowercased; lowercase your query inputs in Python bef
 
 ## Provenance and licensing
 
-The five source databases retain their upstream licenses. GenomicsBench packages them into a single SQLite file for efficient runtime access; see the [GenomicsBench GitHub repository](https://github.com/AfterQuery/GenomicsBench) for the full ETL pipeline under `scripts/databases/` and its step-by-step runbook in `scripts/databases/README.md`.
+The five source databases retain their upstream licenses. OmicsBench packages them into a single SQLite file for efficient runtime access; see the [OmicsBench GitHub repository](https://github.com/AfterQuery/OmicsBench) for the full ETL pipeline under `scripts/databases/` and its step-by-step runbook in `scripts/databases/README.md`.
 
 Rebuilds ship as new revisions on this dataset whenever an upstream source publishes a new release.