CorStitch

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# Downloading CorStitch
The .zip files contain the executables. To run the Python script, run main.py with gui_init.py in the same directory for either Belt or Dive Transects.

You may view the manuals here: <a href="https://docs.google.com/document/d/1iU3Yj9FqNrsEZZFyWWh53rApFekcdGFuro0AH1vIV5A/edit?tab=t.0#heading=h.tdgp6kdymnuv"> Belt Transect Manual </a> and <a href="https://docs.google.com/document/d/1MySvP2t0ovzwl0yyENVurPEY2cZDMjW4WzDGh45Ee5I/edit?tab=t.0"> Dive Transect Manual </a>

# Overview
An Automated Rapid Reef Assessment System (ARRAS) has two parts. The first part is composed of a banca-towable platform equipped with a down-looking camera[1](#ref1). By using the first part to conduct an ARRAS survey, a belt transect video is obtained. A sample of this video can be seen below.

 <img src="https://github.com/jclmaypa/CorStitch/blob/47b69ecaae19efd6889afb5eb8edb0f2497467f3/Sample_Images/Sample_clip.gif?raw=true" alt="Description" width="100%"/>

The second part of ARRAS is a software for automatic video stitching to create georeferenced visual records from the data collected from the first part. Enter CorStitch, a free, open-source software aimed at converting down-looking belt transect videos from ARRAS surveys into georeferenced mosaics.

# CorStitch for Kilometric-scale Belt Transects

CorStitch can create panorama-like images called mosaics by using Fourier-based image registration[2](#ref2) on the central strips[3](#ref3) of adjacent frames to stitch them together. By repeating this process for an $n$ number of central strips of succeeding frames, CorStitch can create an $n$-second mosaic. The mosaics below are samples of $5$-second mosaics.

Once the mosaics are created, they can then be georeferenced. CorStitch uses GNSS data to georeference the mosaics, and its main outputs are KMZ files and rectified mosaics. An example is shown below when a KMZ file is viewed using a Geospatial Software.

<img src="https://github.com/jclmaypa/CorStitch/blob/main/Sample_Images/Sample_georef.png?raw=true" alt="Description" width="100%"/>

There is a sample kmz file inside the Sample_KMZ folder if you want to check it out. You may open the file using Google Earth.

# CorStitch for Dive Transects

Aside from belt transects, CorStitch can also convert dive transect videos to mosaics. Dive transect videos are collected by a diver holding a down-looking underwater camera across the whole length of the transect.

After creating the mosaics, they can be uniformly randomly sampled to simulate the sampling process of CPCe [4](#ref4). CorStitch overlaid cross marks and a number on each chosen pixel with a minimum separation distance of $5$% of the swath width. An example of a small section of a $50$-meter belt transect and its corresponding marked mosaic is shown below.

# CorStitch Preprint
Please properly cite our paper when using this software: https://arxiv.org/abs/2505.00462

# References:
<a name="ref1">[1]</a> Soriano, M. N. (n.d.). Automated Rapid Reef Assessment System (Arras). DOST Technology Transfer. <a href="https://tapitechtransfer.dost.gov.ph/technologies/it-development/automated-rapid-reef-assessment-system-arras">https://tapitechtransfer.dost.gov.ph/technologies/it-development/automated-rapid-reef-assessment-system-arras</a>

<a name="ref2">[2]</a> X. Tong et al., "Image Registration With Fourier-Based Image Correlation: A Comprehensive Review of Developments and Applications," in IEEE Journal of Selected Topics in Applied Earth Observations and Remote Sensing, vol. 12, no. 10, pp. 4062-4081, Oct. 2019, doi: <a href="https://doi.org/10.1109/JSTARS.2019.2937690">10.1109/JSTARS.2019.2937690</a>.

<a name="ref3">[3]</a> Aguinaldo, R.A, and Soriano, M., "Telecentric approximation in underwater image mosaics for minimizing parallax-induced errors", Proceedings of the Samahang Pisika ng Pilipinas 34, SPP-2016-4C-02 (2016). URL: <a href="https://proceedings.spp-online.org/article/view/SPP-2016-4C-02">https://proceedings.spp-online.org/article/view/SPP-2016-4C-02</a>.

<a name = "ref4"> [4] </a> Kohler, K., & Gill, S. (2006). Coral Point Count with Excel extensions (CPCe): A Visual Basic program for the determination of coral and substrate coverage using random point count methodology. Computers & Geosciences, 32(9). URL: <a href= "https://doi.org/10.1016/j.cageo.2005.11.009">https://doi.org/10.1016/j.cageo.2005.11.009</a>

CorStitch

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