evaluate_file_availability_shiny: Evaluate the availability of files

In theMILOlab/cypro: A Toolbox for Analysis of Single Cell Microscopy Data

Evaluate the availability of files

Description

This functions takes a list as input that contains a well-plate data.frame (slot must be named wp_df) and a directory. The directory leads to the folder in which to look for .csv and .xls files named according to the well-image they belong. The availability of files is compared to what is expected based on the well-plate data.frame (wells, number of images per well etc.)

Usage

evaluate_file_availability_shiny(
  wp_list,
  recursive = TRUE,
  keep_filetype = "csv$"
)

evaluate_file_content_shiny(
  var_name_well_plate = "none",
  var_name_well = "Metadata_Well",
  var_name_roi = "Metadata_ROI",
  wp_list,
  df,
  dir,
  ...
)

Arguments

wp_list	A list that contains a well-plate data.frame and a directory leading to the folder in which the respective files are stored.
recursive	Logical value. Given to argument recursive of base::list.files().
keep_filetype	Character value. Determines the filetype to be ignored if for one well-image a .csv and a .xls file is found. Either 'xls$' or 'csv$'.

Value

The same list with additional slots containing a the well-plate data.frame joined with the evaluation variables as well as a vector containing the well-image files that are missing, a vector with file directories that are ambiguous and a vector with the valid directories from which to load the data.

theMILOlab/cypro documentation built on April 5, 2022, 2:03 a.m.