diskImageR: aggregateData – R documentation

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aggregateData

Averages photographs of the same type

Description

Uses a user-supplied variance measure (currently supported: standard error, coefficient of variation, built-in R functions (e.g., sd) to calculate variance among photographs of the same type

Usage

aggregateData(projectName, varFunc = "se", replicate = c("line", "type"),
  overwrite = TRUE, save = TRUE)

Arguments

`projectName`	the short name in use for the project.
`varFunc`	what type of variation measurment to perform. Currently supports `varFunc` = "se" to calculate the standard error, `varFun` = "cv" to calculate the coefficient of variation or any built-in R function (e.g., sd).
`replicate`	a character vector indicating which the column names that contain which factors to use. Defaults to c("line", "type"). Note that if the typeVector name was changed in `createDataframe` this should be reflected here.
`overwrite`	a logical value indicating whether to overwrite existing aggregate dataframe for the same project name. This allows you to save different dataframes averaging across different factors or using different variance measures
`save`	denotes whether to overwrite the existing .csv file or just update the .df in the R global environment. Defaults to TRUE.

Value

A dataframe "projectName.ag" is saved to the global environment and a .csv file "projectName_ag.csv" is exported to the "parameter_files" directory.

Examples

## Not run: 
aggregateData("myProject")
aggregateData("myProject", varFunc= "sd", replicate = c("line", "drugAmt"), overwrite = FALSE)

## End(Not run)

diskImageR

A Pipeline to Analyze Resistance and Tolerance from Drug Disk Diffusion Assays

v1.0.0

GPL-3

Authors

Aleeza Gerstein [aut, cre], Inbal Hecht [ctb]

Initial release