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Timing R Pipelines4 months ago
Overview | Example Data | Timing Workflows | Results
pipetime 0.0.1Cyril Geismar timing_R_pipelines.Rmd
linktree7 months ago
Installation | Transmission assortativity | Gamma | Delta | Estimation | Example | Data | Visualise the transmission tree | Estimate the transmission assortativity coefficient
linktree 0.1.0Cyril Geismar linktree.Rmd
mixtree7 months ago
Introduction | Methods | Input Requirements | Usage | PERMANOVA | Chi-Square Test | Advanced Usage | Using Custom Distance Functions | Note | Future Developments
mixtree 0.0.1Cyril Geismarmixtree.Rmd
Why pipetime?9 months ago
Examples | system.time() | tictoc | time_pipe
pipetime 0.0.1Cyril Geismar why_pipetime.Rmd
Processing the output of outbreaker2 with o2ools1 years ago
Introduction | Identify | Get individual trees | Performance | Accuracy | Entropy | Visualisation | Augment the linelist with outbreaker2's results | Consensus tree | Maximum posterior tree | Additional analyses
o2ools 0.0.1Cyril Geismar o2ools.Rmd