Load and return the MSK-IMPACT clinical sample dataset (deidentified).
Returns:
| Name | Type |
Description |
data |
Bunch
|
Dictionary-like object, with the following attributes.
- data : pandas DataFrame
The data matrix.
- description_columns (Future release) : list
The names of the dataset columns.
- description_dataset (Future release) : str
The full description of the dataset.
- filename (Future release) : str
The path to the location of the data.
|
Examples
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15 | from msk_cdm.datasets import connect_to_db
from msk_cdm.datasets.impact import load_data_clinical_sample
# Connect to the database
auth_file = 'path/to/config.txt'
connect_to_db(auth_file=auth_file)
# Load the dataset
df_clinical_sample = load_data_clinical_sample()
# Access the data
df_clin_s = df_clinical_sample['data']
# Display the first few rows of the data
print(df_clin_s.head())
|
Source code in msk_cdm/datasets/impact/datasets_impact.py
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82 | def load_data_clinical_sample() -> Bunch:
"""Load and return the MSK-IMPACT clinical sample dataset (deidentified).
Returns:
data : Dictionary-like object, with the following attributes.
- **data** : pandas DataFrame
The data matrix.
- **description_columns** (Future release) : list
The names of the dataset columns.
- **description_dataset** (Future release) : str
The full description of the dataset.
- **filename** (Future release) : str
The path to the location of the data.
Examples
-
```python
from msk_cdm.datasets import connect_to_db
from msk_cdm.datasets.impact import load_data_clinical_sample
# Connect to the database
auth_file = 'path/to/config.txt'
connect_to_db(auth_file=auth_file)
# Load the dataset
df_clinical_sample = load_data_clinical_sample()
# Access the data
df_clin_s = df_clinical_sample['data']
# Display the first few rows of the data
print(df_clin_s.head())
```
"""
df = _loader._load_impact_data_clinical_sample()
output = Bunch(data=df)
return output
|