ifcb_summarize_png_counts: Summarize Image Counts by Class and Sample

In iRfcb: Tools for Managing Imaging FlowCytobot (IFCB) Data

Summarize Image Counts by Class and Sample

Description

This function summarizes the number of images per class for each sample and timestamps, and optionally retrieves GPS positions, and IFCB information using ifcb_read_hdr_data and ifcb_convert_filenames functions.

Usage

ifcb_summarize_png_counts(
  png_folder,
  hdr_folder = NULL,
  sum_level = "sample",
  verbose = TRUE
)

Arguments

png_folder	A character string specifying the path to the main directory containing subfolders (classes) with .png images.
hdr_folder	A character string specifying the path to the directory containing the .hdr files. Default is NULL.
sum_level	A character string specifying the level of summarization. Options: "sample" (default) or "class".
verbose	A logical indicating whether to print progress messages. Default is TRUE.

Value

If sum_level is "sample", returns a data frame with columns: sample, ifcb_number, class_name, n_images, gpsLatitude, gpsLongitude, timestamp, year, month, day, time, roi_numbers. If sum_level is "class", returns a data frame with columns: class_name, n_images.

See Also

ifcb_read_hdr_data ifcb_convert_filenames

Examples

## Not run: 
# Example usage:
# Assuming the following directory structure:
# path/to/png_folder/
# |- class1/
# |  |- sample1_00001.png
# |  |- sample1_00002.png
# |  |- sample2_00001.png
# |- class2/
# |  |- sample1_00003.png
# |  |- sample3_00001.png

png_folder <- "path/to/png_folder"
hdr_folder <- "path/to/hdr_folder" # This folder should contain corresponding .hdr files

# Summarize by sample
summary_sample <- ifcb_summarize_png_counts(png_folder,
                                            hdr_folder,
                                            sum_level = "sample",
                                            verbose = TRUE)
print(summary_sample)

# Summarize by class
summary_class <- ifcb_summarize_png_counts(png_folder,
                                           hdr_folder,
                                           sum_level = "class",
                                           verbose = TRUE)
print(summary_class)

## End(Not run)

iRfcb documentation built on April 16, 2025, 1:09 a.m.