R_HMM_Preprocessing

R code for preprocessing DST raw data for the Matlab HMM Geolocation toolbox hmm_smast. Required imput data include meta tagging information from an Excel spreadsheet and the raw temperature and depth/pressure data downloaded from Star-ODDI or Lotek digital storage tags.

Usage

1. Fill in meta tagging information in the Excel file, including the filenames of the raw data files (see Inventory of yellowtail DST Recaptures.xlsx for an example). Put raw data files in raw_tags folder.

2. Edit project-wide information in metadata.R.

3. In process_tags.R, specify the tags you desire to process by assigning corresponding list of tag IDs to the ptags variable.

4. Run process_tags.R. The processed tags will be stored in .mat format in processed_tags folder.

Dependencies

• gdata
• R.matlab