Exponential growth detection
- airplane-demo: demonstration of workflow for answering questions with airplane simulation model
- all-hands: memo on Poisson regression for all-hands meeting
- egd-benchmark: benchmarking and iterating exponential growth detection code computational performance
- egd-metagenomic: testing statistical properties of exponential growth detection on metagenomic time-series data
- exponential-detection: simple simulation and mathematical analysis of exponential growth
- jeff-heuristic: light exploration of proposed heuristic for exponential growth detection
- explain-poisson: explaining why Poisson regression might be suitable for exponential growth detection
- metagenomic-time-series: simulating metagenomic time-series data in an exponential and baseline regime.
- poisson-regression-theory: some theory for Poisson regression standard errors
- 001: exploring the problem with small counts
Measurement
- qPCR: generative models for qPCR amplification curves
Notes
- coda: notes on compositional data analysis
- computational-genomics: notes on computational genomics
- odin: testing the
odin package for compartmental models
Other
- airplane-pooling: note on pooling of wastewater
- catchment: note on possible approach to comparing catchment sizes, and abundance versus concentration
- ppp-model: suggesting notation for pandemic potential pathogen research
- reads: check of calculation on reads or basepairs required
- resources: links to resources I’ve found useful
Google docs