make_meas_object: Make measurement slice

View source: R/clean-perch-data.R

make_meas_objectR Documentation

Make measurement slice

Description

Wrap the information about a particular type of measurement, e.g., NPPCR. NB: add example! copy some from the vignette file.

Usage

make_meas_object(patho, specimen, test, quality, cause_list, sep_char = "_")

Arguments

patho

A vector of pathogen names

specimen

Specimen name

test

Test name

quality

Quality category: any of "BrS", "SS" or "GS".

cause_list

The vector of potential latent status

sep_char

a character string that separate the pathogen names and the specimen-test pair; Default to "_"

Value

A list with measurement information

  • quality same as argument

  • patho same as argument

  • name_in_data the names used in the raw data to locate these measurements

  • template a mapping from patho to cause_list. NROW = length(cause_list)+1; NCOL = length(patho). This value is crucial in model fitting to determine which measurements are informative of a particular category of latent status.

  • specimen same as argument

  • test same as argument

  • nm_spec_test paste specimen and test together

See Also

make_template()

Examples

make_meas_object(
patho = c("A","B","C","D","E","F"), 
specimen = "MBS",
test = "1",
quality = "BrS", 
cause_list = c("A","B","C","D","E"))


zhenkewu/baker documentation built on March 17, 2022, 9:54 p.m.