• BME 230A class project winter 2019
• Andrew E. Davidson
• [email protected]

Note for best viewing experience open links on github. https://github.com/AEDWIP/BME-230a GitHub will automatically render the jupyter notebook files into html. If you experience a rendering problem click on the git hub reload button. Save as PDF sometimes clips plots and puts page breaks in strange places

• clone this repo
• download the required data set
  • you can find a copy at s3://bme-230a.santacruzintegration.com/tcga_target_gtex.h5
  • or run Rob Curries' ingest notebook

• [email protected] notebook
  • final class report.
• simpleModelEvaluation.ipynb notebook
  • logistic regresion model evaluation
• simpleModel.ipynb notebook
  • data exploration, and logistic regression model creation
• diseaseTypeClassifierEval.ipynb notebook
  • disease type mulit-classier evaluation
• diseaseTypeClassifier.ipynb notebook
  • data exploration and softmax mult-classifer model creation
• dimensionaltyReducedDiseaseTypeClassifier.ipynb notebook
  • uses PCA to move from a high to low dimension traning space
• awsSetUpNotes.md
  • poorly written notes about how to spin up a large machine in AWS
  • file is in markdown format. If you do not have a markdown viewer you can easily read this file using a text editor. The format looks like ascii email