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Physical oceanography during ALKOR cruise AL601

Conductivity-temperature-depth profiles were measured using a ADM-CTD SN MOCNET during RV ALKOR cruise AL601. The CTD was equipped with duplicate sensors for temperature, conductivity and oxygen. The oxygen sensor (galvanic oxygen micro-sensor (AMT)) was exchanged in the beginning of the year. The sensors are used throughout the year and no post-cruise calibration is applied. All other sensors of the CTD are calibrated irregularly. This dataset presents conductivity–temperature–depth (CTD) profiles collected during the research cruise. The data were processed using a custom Python workflow designed to summarize, standardize, and prepare CTD measurements for publication. Raw sensor output files (.TOB format) were parsed using a dedicated reader that extracts header metadata and harmonizes variable naming conventions across all profiles. Quality control procedures included the removal of non-physical values, treatment of missing or malformed entries, and consistency checks across key variables such as pressure, temperature, conductivity, and derived parameters (e.g., salinity and oxygen). Oxygen values were scaled, and salinity values were corrected according to the respective CTD calibration. Sensor channels were standardized and renamed to ensure compatibility with common data standards. Geographic coordinates were converted from degrees and minutes to decimal degrees to improve geospatial usability. Pressure was linearly interpolated to a uniform 1 dbar grid, and all depth-dependent parameters were interpolated accordingly. Maximum recorded pressure was cross-checked against local bathymetry (elevation); in cases of mismatch, profiles were truncated at the maximum depth of the corresponding location. The workflow further includes visual quality control of oxygen saturation, station locations, and vertical profiles of temperature, salinity, and oxygen.

Physical oceanography during ALKOR cruise AL580

Conductivity-temperature-depth profiles were measured using a ADM-CTD SN MOCNET during RV ALKOR cruise AL580. The CTD was equipped with duplicate sensors for temperature, conductivity and oxygen. The oxygen sensor (galvanic oxygen micro-sensor (AMT)) was exchanged in the beginning of the year. The sensors are used throughout the year and no post-cruise calibration is applied. All other sensors of the CTD are calibrated irregularly. This dataset presents conductivity–temperature–depth (CTD) profiles collected during the research cruise. The data were processed using a custom Python workflow designed to summarize, standardize, and prepare CTD measurements for publication. Raw sensor output files (.TOB format) were parsed using a dedicated reader that extracts header metadata and harmonizes variable naming conventions across all profiles. Quality control procedures included the removal of non-physical values, treatment of missing or malformed entries, and consistency checks across key variables such as pressure, temperature, conductivity, and derived parameters (e.g., salinity and oxygen). Oxygen values were scaled, and salinity values were corrected according to the respective CTD calibration. Sensor channels were standardized and renamed to ensure compatibility with common data standards. Geographic coordinates were converted from degrees and minutes to decimal degrees to improve geospatial usability. Pressure was linearly interpolated to a uniform 1 dbar grid, and all depth-dependent parameters were interpolated accordingly. Maximum recorded pressure was cross-checked against local bathymetry (elevation); in cases of mismatch, profiles were truncated at the maximum depth of the corresponding location. The workflow further includes visual quality control of oxygen saturation, station locations, and vertical profiles of temperature, salinity, and oxygen.

Physical oceanography during ALKOR cruise AL563

Conductivity-temperature-depth profiles were measured using a ADM-CTD SN MOCNET during RV ALKOR cruise AL563. The CTD was equipped with duplicate sensors for temperature, conductivity and oxygen. The oxygen sensor (galvanic oxygen micro-sensor (AMT)) was exchanged in the beginning of the year. The sensors are used throughout the year and no post-cruise calibration is applied. All other sensors of the CTD are calibrated irregularly. This dataset presents conductivity–temperature–depth (CTD) profiles collected during the research cruise. The data were processed using a custom Python workflow designed to summarize, standardize, and prepare CTD measurements for publication. Raw sensor output files (.TOB format) were parsed using a dedicated reader that extracts header metadata and harmonizes variable naming conventions across all profiles. Quality control procedures included the removal of non-physical values, treatment of missing or malformed entries, and consistency checks across key variables such as pressure, temperature, conductivity, and derived parameters (e.g., salinity and oxygen). Oxygen values were scaled, and salinity values were corrected according to the respective CTD calibration. Sensor channels were standardized and renamed to ensure compatibility with common data standards. Geographic coordinates were converted from degrees and minutes to decimal degrees to improve geospatial usability. Pressure was linearly interpolated to a uniform 1 dbar grid, and all depth-dependent parameters were interpolated accordingly. Maximum recorded pressure was cross-checked against local bathymetry (elevation); in cases of mismatch, profiles were truncated at the maximum depth of the corresponding location. The workflow further includes visual quality control of oxygen saturation, station locations, and vertical profiles of temperature, salinity, and oxygen.

Fish biomass data during Alkor cruise AL614

This data set includes fish biomass data collected during the RV ALKOR cruise AL614 cruise conducted in June 2024 (6th to 15th of June) in the Western Baltic Sea by the University of Hamburg. The cruise was part of the 5-year MARSYS teaching cruise program of the University of Hamburg GFP20-1_047. The cruises are designed to train students in sampling methods targeting the different compartments of a marine ecosystem. Fish biomass was taken after sorting through a complete fish haul into the single species and weighing them on a scale on board.

Body measurements of Gadus morhua during Alkor cruise AL608

This data set includes single fish cod data collected during the RV ALKOR cruise AL608 conducted in March 2024 in the Western Baltic Sea by the University of Hamburg. The cruise was part of the 5-year MARSYS teaching cruise program of the University of Hamburg GFP20-1_047. All single fish measurements were made directly on board. Full wet weights of cod were measured and subsequently cod were gutted and liver weights, gonad weights and sexes, gutted wet weights (i.e., gutted wet mass), gonad stages and liver nematode infestations were recorded.

Timeseries of physical oceanography in the Baltic Sea from 2011-2022

Conductivity-temperature-depth profiles were measured using a CTD during RV ALKOR cruises. The CTD was equipped with duplicate sensors for temperature, conductivity and oxygen. All sensors are calibrated irregularly. Data were connected to the station book of the specific cruise as available in the DSHIP database.

Body measurements of Gadus morhua during Alkor cruise AL560

This data set includes single fish cod data collected during the RV ALKOR cruise AL560 conducted in July 2021 (19th to 27th of July) in the Western Baltic Sea by the University of Hamburg. The cruise was part of the 5-year MARSYS teaching cruise program of the University of Hamburg GFP20-1_047. All single fish measurements were made directly on board. Full wet weights of cod were measured and subsequently cod were gutted and liver weights, gonad weights and sexes, gutted wet weights (i.e., gutted wet mass), gonad stages and liver nematode infestations were recorded, and Otoliths were taken.

Physical oceanography during ALKOR cruise AL571

Conductivity-temperature-depth profiles were measured using a Seabird SBE 911plus CTD during RV ALKOR cruise AL571. The CTD was equipped with duplicate sensors for temperature (SBE3plus), conductivity (SBE4) and oxygen (SBE43). Temperature, conductivity and oxygen sensors are calibrated by the manufacturer once a year before being mounted in January. They are used throughout the year and no post-cruise or in-situ calibration is applied. All other sensors are calibrated irregularly. Data were connected to the station book of the specific cruise as available in the DSHIP database.

Physical oceanography during ALKOR cruise AL553

Conductivity-temperature-depth profiles were measured using a CTD during RV ALKOR cruise AL553. The CTD was equipped with duplicate sensors for temperature, conductivity and oxygen. All sensors are calibrated irregularly. Data were connected to the station book of the specific cruise as available in the DSHIP database.

Physical oceanography during ALKOR cruise AL493

Conductivity-temperature-depth profiles were measured using a CTD during RV ALKOR cruise AL493. The CTD was equipped with duplicate sensors for temperature, conductivity and oxygen. All sensors are calibrated irregularly. Data were connected to the station book of the specific cruise as available in the DSHIP database.

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