Process All UID CSV Files in Batch — process_all_uid

Finds, groups, and processes all raw UID export CSVs in a directory, then saves cleaned and downsampled outputs to a target directory.

Usage

process_all_uid_files(
  raw_export_dir = "temperature/raw_data",
  output_dir = "temperature/data",
  n = 1,
  precision = "minute",
  outlier_threshold = 1,
  flicker_correction = TRUE,
  flicker_dominant_two_thr = 0.65,
  flicker_alt_rate_thr = 0.4,
  flicker_contiguous_thr = 0.65
)

Arguments

raw_export_dir: Directory containing raw UID .CSV files.
output_dir: Directory to write cleaned files to.
n: Bin size for downsampling (default = 1).
precision: Time unit for binning (default = \"minute\").
outlier_threshold: Temperature delta threshold for outlier detection.
flicker_correction: Whether to apply activity flicker correction before quantification.
flicker_dominant_two_thr: Threshold for dominant two-zone occupancy fraction.
flicker_alt_rate_thr: Threshold for ABAB alternation rate within minute bins.
flicker_contiguous_thr: Threshold for contiguous-transition fraction within minute bins.

Value

Invisibly returns a list of output file paths.

Details

Each cleaned session is expected to contain a single rfid to matrix_name mapping. If the same rfid appears on more than one matrix within a session, the cleaning step prints a summary table and requires an interactive choice. Low-percentage stray detections can be removed after confirmation; more substantial duplicate detections abort processing and should be reviewed manually.