The CalCOFI Integrated Application is an open-source tool that helps users explore relationships between larval fish populations and ocean conditions across time and space. It integrates fish eggs and larvae data with oceanographic bottle data (e.g., temperature, salinity, and nutrients) from the CalCOFI program.
The ocean is rapidly changing through warming, sea-level rise, ocean acidification, declining oxygen concentrations, and altered circulation patterns, which are reshaping marine ecosystems worldwide. These changes necessitate a complete and holistic view of affected marine ecosystems. Long-term ocean monitoring programs are crucial for understanding these changes and guiding sustainable management. The California Cooperative Oceanic Fisheries Investigations (CalCOFI)*1, initiated in 1949, is one of the world’s longest-running and most comprehensive marine ecosystem observing programs.
CalCOFI collects extensive ocean data across all Essential Ocean Variables in the Southern California Current four times a year (Gallo et al. 2022). This encompasses over 36 physical and chemical parameters, 2,500 biological parameters, and 50,000 environmental DNA sequences, measured simultaneously (Satterthwaite et al. 2025). These data have illuminated long-term ecosystem patterns, supported marine management, and enhanced our understanding of how climate variability and change impact the California Current.
Given its long history and collaborative nature, CalCOFI’s data are fragmented across more than 30 disparate datasets, managed by different entities, served in various locations, with inconsistent naming and limited integration (Fig. 1), which hinders a holistic ecosystem understanding. Thus, CalCOFI exemplifies similar challenges and opportunities of mobilizing and integrating ocean data on a global scale.
The purpose of this Shiny App is to provide scientists with an interactive tool to visualize marine mammal data collected onboard CalCOFI. Here we integrate multiple datastreams, highlighting how marine mammal visual sightings and eDNA detections are represented through time and space.
