ASBVd Detection

Reproducibility
- Install the R Package
- Dilution experiments
  - 1 to 200 leaf bulk experiment (SA)
    - Dataset
    - Analysis
  - Standard curve (Au)
    - Dataset
    - Analysis
  - 8 leaf Bulk Ct (Au)
    - Dataset
    - Analysis
  - 1 to 100 leaf bulk experiment (Au)
    - Dataset
    - Analysis
  - 8 and 100 leaf bulk experiments combined (Au)
    - Analysis
- Research of hot spots
  - Punch hole effect (Au)
    - Dataset
    - Analysis
  - Leaf, octant, branch and tree effects (Au)
    - Dataset
    - Analysis
  - Leaf, octant, branch and tree effects (SA)
    - Dataset
    - Analysis
- Run the interactive tools in Rstudio
- Compute the optimal parameters in Rstudio
- Figures for the paper
- Tables for the paper
- Tables for the paper

ASBVd Detection

These pages accompany the R package gitlab repository https://gitlab.developers.cam.ac.uk/gilligan-epid/asbvddetect/asbvd-detect-r that contains data and code for the paper under preparation : Rational design of a sampling protocol for detection of a subcellular pathogen to demonstrate area freedom Authors: D.B. Bonnéry, L.Pretorius, A.E.C. Jooste, A. Geering, C.A. Gilligan

Access to a sample size calculator and simulation tool as well as displays of the datasets and code used to conduct the statistical analysis are provided.