Package index • tidypptsda

Quality-control settings Set every threshold of the pipeline in one object; override single parameters.
`qc_config()`	Build Quality-Control Settings
`fiv_max_example()` `bin_fcr_example()`	Example threshold tables
Read and prepare station data Read NEDAP or FIRE exports (many files or a folder), turn them into one standard visit table and add breed information.
`read_station()`	Read Feeding Station Export Files
`station_format()`	Station Formats: Map Export Columns to Standard Fields
`prep_visits()`	Prepare a Standard Visit Table
`add_breed()`	Add Breed Information to a Visit Table
Body weight and daily gain Flag implausible body weights, fill the missing daily weights of the stage and compute ADG as the slope of the daily weights.
`clean_weight()`	Clean Body Weight Records and Check Each Pig
`calc_adg()`	Compute Average Daily Gain (ADG) from Growth Curves
Feed intake and feed conversion Flag feeder errors, correct and impute daily feed intake, and combine ADG and ADFI into FCR.
`flag_feed_errors()`	Flag Feeder Errors (Casey et al. 2005)
`calc_adfi()`	Correct and Impute Daily Feed Intake (ADFI)
`calc_fcr()`	Compute Feed Conversion Ratio (FCR) with Confidence Flags
Whole pipeline Run every step in a row with one set of QC settings and keep all intermediate results.
`run_pipeline()`	Run the Whole Analysis Pipeline
Export Write all result tables to CSV files for the testing station, or an HTML report to browse station by station.
`write_results()`	Write Analysis Results to CSV Files
`write_report()`	Write an HTML Report to Browse Station by Station
Validation Check the outlier methods, growth curve models, weight fill and feed intake imputation on your own data, by spoiling or hiding part of it on purpose.
`validate_outliers()`	Validate Weight Outlier Methods with Artificial Errors
`validate_adg()`	Validate Growth Curve Models
`validate_weight_fill()`	Validate Body Weight Fill Methods
`validate_adfi()`	Validate Feed Intake Imputation
`validate_truncation()`	Validate the Whole Pipeline by Truncating Pigs
Plots One plot per station and one panel per pig; write them to files.
`plot_adg()`	Plot Growth Curves per Station
`plot_adfi()`	Plot Daily Feed Intake per Station
`save_plots()`	Save Plots to Files
Example data Raw exports from NEDAP and FIRE stations, used in every example.
`nedap`	Example Visits from NEDAP Feeding Stations
`fire`	Example Visits from FIRE Feeding Stations

Reference

Quality-control settings

Read and prepare station data

Body weight and daily gain

Feed intake and feed conversion

Whole pipeline

Export

Validation

Plots

Example data