Merge branch 'master' of github.com:tristantreb/pdm

README.md

@@ -4,7 +4,7 @@ Thesis title: Bayesian inference with Expectation Maximisation for the character
 
 Side project title: Estimation of the variability in Cystic Fibrosis patient’s FEV1 lung function measurements
 
-Hosted at the University of Cambridge, supervised at EPFL
+Hosted at the University of Cambridge
 
 ## Documentation
 The code documentation is available [here](https://tristantreb.github.io/master_thesis_CF_ML/).
@@ -22,12 +22,19 @@ The code documentation is available [here](https://tristantreb.github.io/master_
 ```
 
 ## Code base usage
+1. Clone this repo in a folder called `Code/`
+2. In that same folder, clone [this](https://github.com/damiansphd/smartcare/tree/9179127f15e96085db14e362f9d43b36f488472e) version of the repo - it shows the project version at commit 9179127f15e96085db14e362f9d43b36f488472e (26.07.2021)
+3. You should obtain the following folder structure `Code/master_thesis_CF_ML` and `Code/smartcare`
+4. Change the absolute pathes in the init.m files - see `FEV1variability`, `exploration`,  `recovery`
+5. You are ready!
+
+### Main project
 1. Run `masterscriptRecovery` to load the data 
 2. Explore data with functions in `exploration`
 3. For the main project: run an alignment model with `runAlignmentModelEMMCRecoveryFcn`
-For the side project: run `analyseFEV1Variability`
 
-more details in the documentation
+### Side project
+1. Run `analyseFEV1Variability`
 
 ## Data
 The data is not available as it is stored in a secured server due to privacy reasons.