Website for COVID-19 ORC Research Effort

This website presents the results of our work.

Link to website: http://www.covidanalytics.io/

Getting Started

After cloning/being up to date with the repo, run (preferably from a virtual environment):

pip install -r requirements.txt

Workflow

To run the app locally, run from your command line:

python index.py

Then in your browser, insert the address shown in your terminal.

(To exit, CTRL+C)

Once you are done and have checked your changes locally, make a pull request.

COVIDAnalytics REST API

For easy integration, we provide a RESTful HTTP API.

Functionality

As of now, we only expose our models to calculate patient risk. The base path for this API is https://covidanalytics.io/api/ and we provide the following functionality:

As of now, we only expose our models to calculate patient risk. The base path for this API is https://covidanalytics.io/api/ with these endpoints:

Endpoint	Function
`mortality_calc_no_labs`	Runs the mortality risk calculator model without lab values
`mortality_calc_labs`	Runs the mortality risk calculator model with lab values
`infection_calc_no_labs`	Runs the infection risk calculator model without lab values
`infection_calc_labs`	Runs the infection risk calculator model with lab values

Parameters

Parameter	Description
`age`	Age
`sao2-labs`	ABG: Oxygen Saturation (SaO2)
`sao2-nolabs`	SaO2
`cardiac_freq`	Cardiac Frequency
`alt`	Alanine Aminotransferase (ALT)
`creat`	Blood Creatinine
`sodium`	Blood Sodium
`bun`	Blood Urea Nitrogen (BUN)
`temp`	Body Temperature
`crp`	C-Reactive Protein (CRP)
`hemo`	CBC: Hemoglobin
`leuko`	CBC: Leukocytes
`mcv`	CBC: Mean Corpuscular Volume (MCV)
`ast`	Aspartate Aminotransferase (AST)
`platel`	CBC: Platelets
`glyc`	Glycemia
`pot`	Potassium Blood Level
`inr`	Prothrombin Time (INR)
`gender`	Gender
`dysrh`	Cardiac dysrhythmias
`kidney`	Chronic kidney disease
`atheros`	Coronary atherosclerosis and other heart disease
`diabetes`	Diabetes
`bili`	Total Bilirubin
`rdw`	CBC: Red cell Distribution Width (RDW)
`resp_freq`	Respiratory Frequency
`calcium`	Blood Calcium

Example

From the browser go to:

# Run the mortality calculator without labs on a male, age 50, oxygen saturation 98%:
https://covidanalytics.io/api/mortality_calc_no_labs?age=50&gender=0.0&sao2=98.0

# Run the infection calculator with lab values on a diabetic female, age 50, oxygen saturation 98%, blood glucose 500mg/dL:
https://covidanalytics.io/api/mortality_calc_no_labs?age=50&gender=1.0&sao2=98.0&glyc=500&diabetes=true

Or from Python:

import requests
print(requests.get('https://covidanalytics.io/api/mortality_calc_no_labs', params={'age': 50, 'gender': 0, 'diabetes': True, 'sao2': 98}).json())

All Parameters

Here is a table of all available parameters. Note that not all parameters are available for all models. You can refer to the website calculator to see if a parameter is available for a particular model.

GET Parameter	Feature Name	Datatype	Value Range	Explanation
`age`	Age	numeric	0.0 - 100.0	Age of the patient. Modeled only for adults.
`temp`	Body Temperature	numeric	34 - 104.0	Body temperature measurement. Use the dropdown to select the unit (Fahrenheit or Celsius).
`cardiac_freq`	Cardiac Frequency	numeric	40.0 - 171.0	Number of Beats per Minute.
`resp_freq`	Respiratory Frequency	numeric	14.0 - 40.0	Number of Breaths per Minute
`sao2-nolabs`	SaO2	numeric	80 - 100.0	Oxygen Saturation (SaO2) in %
`sao2-labs`	ABG: Oxygen Saturation (SaO2)	numeric	80 - 100.0	Oxygen Saturation (SaO2) in %
`crp`	C-Reactive Protein (CRP)	numeric	0.0 - 567.0	C-Reactive Protein (CRP) in mg/L
`leuko`	CBC: Leukocytes	numeric	0.0 - 36.0	Leukocytes in 10^3/muL
`calcium`	Blood Calcium	numeric	6.0 - 12.0	Blood Calcium in mg/dL
`platel`	CBC: Platelets	numeric	20.0 - 756.0	Platelets in 10^3/muL
`creat`	Blood Creatinine	numeric	0.0 - 11.0	Blood Creatinine in mg/dL
`mcv`	CBC: Mean Corpuscular Volume (MCV)	numeric	58.0 - 116.0	Mean Corpuscular Volume (MCV) in fL
`inr`	Prothrombin Time (INR)	numeric	0.0 - 17.0	Prothrombin Time Ratio (INR)
`sodium`	Blood Sodium	numeric	115.0 - 166.0	Blood Sodium in mmol/L
`rdw`	CBC: Red cell Distribution Width (RDW)	numeric	10 - 27	Red cell Distribution Width in %
`ast`	Aspartate Aminotransferase (AST)	numeric	9.0 - 941.0	Aspartate Aminotransferase (AST) in U/L
`bun`	Blood Urea Nitrogen (BUN)	numeric	4.0 - 174.0	Blood Urea Nitrogen (BUN) in mg/dL
`alt`	Alanine Aminotransferase (ALT)	numeric	2.0 - 929.0	Alanine Aminotransferase (ALT) in U/L
`bili`	Total Bilirubin	numeric	0.0 - 5.0	Total Bilirubin in mg/dL
`hemo`	CBC: Hemoglobin	numeric	6.0 - 19.0	Hemoglobin in g/dL
`glyc`	Glycemia	numeric	57.0 - 620.0	Blood Glucose in mg/dL
`pot`	Potassium Blood Level	numeric	2.0 - 7.0	Potassium Blood Level in mmol/L
`gender`	Gender	category	[0.0, 1.0]	Select the gender of the patient. 0.0 -> male; 1.0 -> female
`dysrh`	Cardiac dysrhythmias	boolean	true/false	Disease
`kidney`	Chronic kidney disease	boolean	true/false	Disease
`atheros`	Coronary atherosclerosis and other heart disease	boolean	true/false	Disease
`diabetes`	Diabetes	boolean	true/false	Disease

COVIDAnalytics/website