Datasets:
Tasks:
Tabular Regression
Modalities:
Text
Formats:
csv
Languages:
English
Size:
10K - 100K
DOI:
License:
added usage principles with sklearn-based models
Browse files
README.md
CHANGED
@@ -120,7 +120,32 @@ it can be either rounded by the researchers to full years, or converted from mon
|
|
120 |
|
121 |
## Usage Guidelines
|
122 |
|
123 |
-
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
124 |
|
125 |
## Additional Information
|
126 |
|
|
|
120 |
|
121 |
## Usage Guidelines
|
122 |
|
123 |
+
Suppose you trained brand-new epigenetic aging clocks model using classic `scikit-learn` library. You saved your model as `pickle` file. Then, the following block of code can be used for benchmarking your model. We also added several other published aging clocks for comparison with yours.
|
124 |
+
```python
|
125 |
+
from computage import run_benchmark
|
126 |
+
|
127 |
+
#first define NaN imputation method for in_library models
|
128 |
+
#for simlicity here we recommend to use imputation with zeros
|
129 |
+
imputation = 'none'
|
130 |
+
models_config = {
|
131 |
+
"in_library":{
|
132 |
+
'HorvathV1':{'imputation':imputation},
|
133 |
+
'Hannum':{'imputation':imputation},
|
134 |
+
'PhenoAgeV2':{'imputation':imputation},
|
135 |
+
},
|
136 |
+
#here we should define a name of our new model as well as path
|
137 |
+
#to the pickle file (.pkl) of the model
|
138 |
+
"new_models":{
|
139 |
+
#'my_new_model_name': {'path':/path/to/model.pkl}
|
140 |
+
}
|
141 |
+
}
|
142 |
+
#now run the benchmark
|
143 |
+
bench = run_benchmark(models_config,
|
144 |
+
experiment_prefix='my_model_test',
|
145 |
+
output_folder='./benchmark'
|
146 |
+
)
|
147 |
+
#upon completion, the results will be saved in the folder you specified
|
148 |
+
```
|
149 |
|
150 |
## Additional Information
|
151 |
|