Source the screens and gene pool from assaybench
Browse files
README.md
CHANGED
|
@@ -42,11 +42,11 @@ in this repository.
|
|
| 42 |
Then run it on a held-out screen and score the trajectory:
|
| 43 |
|
| 44 |
```python
|
| 45 |
-
from assaybench import SequentialLoop, enrichment_factor
|
| 46 |
from assayloop.acquisitions.greedy_from_model import GreedyFromModel
|
| 47 |
-
from assayloop.tasks import AssayBenchGeneBatchTask
|
| 48 |
|
| 49 |
-
screens = load_screens(
|
| 50 |
universe = gene_universe(screens) # the f2 pool, 21,147 genes
|
| 51 |
|
| 52 |
screen = screens[0]
|
|
|
|
| 42 |
Then run it on a held-out screen and score the trajectory:
|
| 43 |
|
| 44 |
```python
|
| 45 |
+
from assaybench import SequentialLoop, enrichment_factor, gene_universe, load_screens
|
| 46 |
from assayloop.acquisitions.greedy_from_model import GreedyFromModel
|
| 47 |
+
from assayloop.tasks import AssayBenchGeneBatchTask
|
| 48 |
|
| 49 |
+
screens = load_screens("assayloop-test") # the paper's 20-screen test set
|
| 50 |
universe = gene_universe(screens) # the f2 pool, 21,147 genes
|
| 51 |
|
| 52 |
screen = screens[0]
|