add example
Browse files
README.md
CHANGED
|
@@ -6,4 +6,13 @@ license: odbl
|
|
| 6 |
|
| 7 |
# cBioPortal Datahub
|
| 8 |
|
| 9 |
-
These are parquet files generated from https://github.com/cBioPortal/datahub. It combines all studies' sample, patient, and mutation data into parquet files. They were generated using [cbiohubpy](https://github.com/cBioPortal/cbiohubpy).
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 6 |
|
| 7 |
# cBioPortal Datahub
|
| 8 |
|
| 9 |
+
These are parquet files generated from https://github.com/cBioPortal/datahub. It combines all studies' sample, patient, and mutation data into parquet files. They were generated using [cbiohubpy](https://github.com/cBioPortal/cbiohubpy).
|
| 10 |
+
|
| 11 |
+
## How to use
|
| 12 |
+
|
| 13 |
+
You can e.g. query the mutations directly like so in `duckdb`:
|
| 14 |
+
|
| 15 |
+
```
|
| 16 |
+
SELECT count(distinct (Chromosome, Start_Position, End_Position, Reference_Allele, Tumor_Seq_Allele1, Tumor_Seq_Allele2))
|
| 17 |
+
FROM read_parquet('hf://datasets/cBioPortal/datahub/data/combined_mutations.parquet')
|
| 18 |
+
```
|