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C2MA-workshop / c2ma-tutorials

Various tutorials demonstrating how to query and post-process climate data and calculate simple malaria transmission metrics
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Climate change and malaria workshop - tutorials

The tutorials are part of the C2MA Climate Change Malaria Action workshop which ran from 19th to 21st of July 2021 - full details here.

In this repository are a number of tutorials demonstrating how to query climate from IBM PAIRS/Weather Ops Center api, post-process, and run a simple R0 malaria model using climate-sensitive transmission metrics.

DOI
Please use this DOI to cite the code for the R0 malaria model if you intend to use it in a publication. We would also love to hear more about how you're using these resources! Contact anne.jones@ibm.com

Using IBM PAIRS

There are two modes for using PAIRS, Graphical User Interface (GUI) and via API calls. There are "Datasets" and "DataLayers". There is a one to many relationship (a dataset contains one or more datalayers).

The tutorials in this repository will show you how to use the python api. The PAIRS GUI can also be used for querying and for exploring the Datasets and Datalayers available to you. If you have followed the setup steps (https://github.com/C2MA-workshop/c2ma-docs) you should already have PAIRS access via an IBM id and an api key.

PAIRS GUI

We recommend quickly going through the videos (they are each very short) to become familiar with the interface and then go to the step by step instructions while also looking at the online tutorial :

There are a few short videos https://www.youtube.com/playlist?list=PL0VD16H1q5IO3sP-i667TVyn4OsSP6kPc.
Online PAIRS GUI Tutorial https://pairs.res.ibm.com/tutorial/tutorials/gui/index.html.
Access PAIRS GUI here: https://ibmpairs.mybluemix.net/ (log in with your IBM id).

We will run a short demo of the GUI in the workshop.

PAIRS api python tutorials - fetch Notebooks to your local machine

To get a copy of the Notebooks follow the steps below.

Create a sub-directory of your choice on your own machine and then click on Code -> Download ZIP and save the zip file. Unzip the zip file to be able to access all the files from this github.

getNotebooks

The Notebooks are contained in files ending .jpynb

Import Notebooks to your Project

If you have followed the setup step (https://github.com/C2MA-workshop/c2ma-docs) then you will have a Project ready for the Notebooks to be imported into.

See Import test Notebook to Watson Studio to import all the Notebooks in this github into the same Project used in the setup instructions.