Package: gcplyr 1.12.0

Where are we so far? | Pre-processing | Pre-processing: excluding data | Pre-processing: converting dates & times into numeric | Pre-processing: subtracting blanks | Plotting your data | What's next?

Where are we so far? | How to process and analyze your data | A brief primer on dplyr | Processing data: calculating derivatives | A simple derivative | Per-capita derivative | Converting per-capita growth rates into doubling times | What's next?

Getting started | A quick demo of gcplyr | What's next?

Where are we so far? | Analyzing data with summarize | Most common metrics | Growth | Saturation | Total growth | Diauxic growth | Growth with antagonists (e.g. phages) | Another brief primer on dplyr: summarize | Plotting summarized metrics | The most common metrics | Lag time | Maximum growth rate and minimum doubling time | Maximum density | Area under the curve | Growth metrics | Initial density | Lag time | Time to reach threshold density | Time to reach threshold growth rate | Maximum growth rate and minimum doubling time | Saturation metrics | Mid-point time or inflection point | Maximum density | Total growth metrics | Area under the curve | Centroid of area under the curve | Diauxic growth metrics | Diauxic shifts | Growth rate during diauxie | Metrics of growth with antagonists | Peak bacterial density | Extinction time | Centroid of area under the curve | What's next?

Where are we so far? | Statistical analyses of growth curves data | When should we average replicates? | Carrying out statistical testing | Combining growth curves data with other data | Other growth curve analysis packages | What's next?

Where are we so far? | A brief primer on lists in R | Importing data for multiple plates | Reading files for multiple block-shaped plates | Separated block-shaped plate files | Interleaved block-shaped plate files | Reading files for multiple wide-shaped plates | Transforming multiple plates to tidy-shaped | Merging designs with multiple plates | Plates with different designs | Plates with a shared design

Where are we so far? | Introduction | Summarizing on subsets of derivatives | Fitting during derivative calculation | Smoothing raw data | Smoothing with moving-median | Smoothing with moving-average | Combining multiple smoothing methods | Smoothing with other methods | Choosing tuning parameter values | Calculating derivatives of smoothed data | What's next?

Where are we so far? | Including design elements | Importing block-shaped design files | A basic example | Importing multiple block-shaped design elements | Importing multiple block-shaped designs in separate files | Importing multiple separated block-shaped designs in one file | Importing multiple pasted block-shaped designs | Importing tidy-shaped design files | Merging growth curve data with designs | What's next?

Where are we so far? | Data formats and layouts | Importing data | Importing block-shaped data | A basic example | Specifying metadata | Reading multiple blocks from a single file | What to do next | Importing wide-shaped data | Importing tidy-shaped data | Transforming data | Transforming from wide-shaped to tidy-shaped | What's next?

Where are we so far? | Including design elements | An example with a single design | A few notes on the pattern | Continuing with the example: multiple designs | Saving designs to files | Saving tidy-shaped designs | Saving block-shaped designs | Saving block-shaped designs to multiple files | Saving block-shaped designs to a single file | Merging growth curve data with designs