The data is generated by the make_data.Rmd Rmarkdown script (the HTML version of which can be seen on rpubs.com/choisy/colistindata) and is stored in the data/viparc.csv CSV file. It contains 5391 weeks of observation (rows) and 149 variables (columns). The variables are
- USUBJID: farm ID;
- FLOCKSEQUENCE: flock ID (in a given farm);
- WEEK: week number (in a given flock of a given farm);
- RESPIRATORY, ..., SUDDENDEATH: presence/absence of 6 clinical signs in the flock;
- amoxicillin_use, ..., unknown_use: presence/absence of 44 antimicrobials in the flock;
- amoxicillin_g, ..., unknown_g: mass, in g, of the antimicriobial used in the flock;
- amoxicillin_g.kg, ..., unknown_g.kg: mass, in g per kg of chicken, of the antimicriobial used in the flock;
- completed: boolean informing whether the flock is done (
TRUE) or still ongoing (FALSE); - CHICKENTOTAL: total number of chicken in the farm;
- arm_weight_kg: mass, in kg, of chicken in the farm;
- sampling: boolean informing whether there is feces sampling during the week.