Raw GHG static chamber data of RESTORE4Cs project (CO2 and CH4 concentration time series and incubation details)
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2026
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| author | Cabrera-Brufau, Miguel Minaudo, Camille Attermeyer, Katrin Camacho-Santamans, Alba Carballeira, Rafael Misteli, Benjamin Montes-Pérez, Jorge Juan Morant, Daniel Obrador, Biel Picazo Mozo, Antonio Rochera, Carlos von Schiller, Daniel Camacho, Antonio |
| author_facet | Cabrera-Brufau, Miguel Minaudo, Camille Attermeyer, Katrin Camacho-Santamans, Alba Carballeira, Rafael Misteli, Benjamin Montes-Pérez, Jorge Juan Morant, Daniel Obrador, Biel Picazo Mozo, Antonio Rochera, Carlos von Schiller, Daniel Camacho, Antonio |
| contents | <p>This dataset consists on the raw data required to calculate instantaneous CO2 and CH4 fluxes using static GHG chambers from Horizon project RESTORE4Cs (<span lang="en-GB">Modelling</span> RESTORation of wEtlands for Carbon pathways, Climate Change mitigation and adaptation, ecosystem services, and biodiversity, Co-benefits). Static chambers were deployed across 6 European coastal wetlands in sites of well-preserved, altered and restored conservation status, see <a href="https://doi.org/10.31223/X5PB36">https://doi.org/10.31223/X5PB36</a> for sampling design and methodological details. </p> <p>This dataset contains the files required to run the code in <a href="https://github.com/MCabreraBrufau/Restore4Cs_GHG_chamber_fluxes" target="_blank" rel="noopener">Restore4Cs_GHG_chamber_fluxes</a>. Running the code produces, for each UniqueID CO2 and CH4 time series, flux estimates using three approaches: (i) a two-point method, where the flux is calculated from the net concentration change throughout the incubation using the average (10 s) initial and final concentrations; (ii) a linear model (LM); and (iii) a non-linear (HM) (Hutchinson and Mosier, 1981) regression model. A "best.model" is selected among the previous three based on ebullition presence/absence and on a set of objective criteria for model-fit quality metrics.</p> <p>This dataset contains: </p> <ol> <li> <p>"RData_timeseries.rar" folder, containing RData files with raw CO2 and CH4 concentration time series obtained with three portable gas analyzers (Li-COR 7810, Picarro G4301, GLA132-GGA). Organized as 1 file per sampling session, named as site_gasAnalizer. Each file contains timestamp, GHG concentrations and instrument precision organized in columns "POSIX.time" "CO2dry_ppm" "CH4dry_ppb" "H2O_ppm" "CO2_prec" "CH4_prec" "H2O_prec".</p> </li> <li> <p>"Auxfiles" folder, containing 4 csv files with incubation details:</p> <ul> <li> <p>co2_auxfile.csv and ch4_auxfile.csv: these files contain the details of each incubation (identified by column "UniqueID") required to calculate the instantaneous GHG flux with goFlux package. Due to distinct patterns and artifacts in the CO2 and CH4 time series of the same "UniqueID" incubation, different cropping decisions were implemented for each gas, leading to different "start.time", "duration" and "co2/ch4_decission". Columns are: </p> <ul> <li> <p>"UniqueID": identifier of each static chamber incubation.</p> </li> <li> <p>"subsite": code specifying the wetland site where the incubation was performed.</p> </li> <li> <p>"gas_analiser": instrument used to record GHG concentration. One of "Picarro" (Picarro G4301), "LI-COR" (Li-COR 7810) or "Los Gatos" (GLA132-GGA).</p> </li> <li> <p> "start.time": initial POSIX time of incubation to consider for flux calculation.</p> </li> <li> <p>"duration": seconds of incubation to consider for flux calculation.</p> </li> <li> <p>"water_depth": centimetres of water at chamber position.</p> </li> <li> <p>"Area": base area of chamber in squared centimeters.</p> </li> <li> <p>"Vtot": total volume of chamber in Litres.</p> </li> <li> <p>"Tcham": initial temperature (ºC).</p> </li> <li> <p>"Pcham": initial pressure (KPa).</p> </li> <li> <p>"strata": classification of substrate where incubation was performed. One of "vegetated", "open water", "bare".</p> </li> <li> <p>"chamberType": type of chamber used, either "floating" (semi-espherical chamber) or "tube" (modular cylindricar chamber).</p> </li> <li> <p>"lightCondition": opacity of chamber, either "transparent" or "dark".</p> </li> <li> <p>"co2/ch4_decission": whether the incubation timeseries can be used to obtain an appropriate flux for the particular GHG species. Either "ok" or "discard" (based on visual inspection of timeseries and on field-notes). </p> </li> </ul> </li> <li> <p>ebullition_inspection.csv: This file contains the recording of presence of ebullitive dynamics in each CH4 time series, identified visually. This is used to help the selection of the most-appropriate model to calculate the CH4 flux. Contains only 3 columns: "UniqueID", "ch4_decission" (same as ch4_auxfile.csv) and "visual_ebullition" (T/F). </p> </li> <li> <p>Original_incubations_crop_decissions.csv: This file contains the original start.time and duration for each UniqueID originating from field recordings of chamber closure and opening times. Additionally, the cropping decisions (in seconds) implemented after visual inspection of each gas time series in combination with field-notes are included. Decisions to completely discard an incubation's gas time series (co2, ch4 or both) due to strong artifacts or wrong manipulations are also recorded. This file can be used to re-process the dataset by creating new auxfiles that implement different cropping decissions. Columns are:</p> <ul> <li> <p>"UniqueID": identifier of each static chamber incubation.</p> </li> <li> <p>"og.start.time": original POSIX time of incubation start (recorded in the field)</p> </li> <li> <p>"og.duration": original elapsed seconds from incubation start to incubation end (recorded in the field)</p> </li> <li> <p>"co2_crop_start_s": seconds to crop at the start of incubation for CO2 flux calculation (co2_auxfile$start.time= og.start.time + co2_crop_start_s)</p> </li> <li> <p>"co2_crop_end_s": seconds to crop at the endof incubation for CO2 flux calculation (co22_auxfile$duration = og.duration - co2_crop_end_s)</p> </li> <li> <p>"co2_decission": whether the incubation can be used for CO2 flux calculation (ok/discard)</p> </li> <li> <p>"co2_obs_inspection": notes after visual inspection</p> </li> <li> <p>"ch4_crop_start_s", "ch4_crop_end_s", "ch4_decission" and "ch4_obs_inspection" columns have the same information for each incubation UniqueID but referring to the CH4 timeseries. </p> </li> </ul> </li> </ul> </li> </ol> |
| format | Recurso digital |
| id | zenodo_https___doi_org_10_5281_zenodo_18803756 |
| institution | Zenodo |
| language | |
| publishDate | 2026 |
| publisher | Zenodo |
| record_format | zenodo |
| spellingShingle | Raw GHG static chamber data of RESTORE4Cs project (CO2 and CH4 concentration time series and incubation details) Cabrera-Brufau, Miguel Minaudo, Camille Attermeyer, Katrin Camacho-Santamans, Alba Carballeira, Rafael Misteli, Benjamin Montes-Pérez, Jorge Juan Morant, Daniel Obrador, Biel Picazo Mozo, Antonio Rochera, Carlos von Schiller, Daniel Camacho, Antonio Greenhouse Gases Carbon Dioxide Methane Wetlands <p>This dataset consists on the raw data required to calculate instantaneous CO2 and CH4 fluxes using static GHG chambers from Horizon project RESTORE4Cs (<span lang="en-GB">Modelling</span> RESTORation of wEtlands for Carbon pathways, Climate Change mitigation and adaptation, ecosystem services, and biodiversity, Co-benefits). Static chambers were deployed across 6 European coastal wetlands in sites of well-preserved, altered and restored conservation status, see <a href="https://doi.org/10.31223/X5PB36">https://doi.org/10.31223/X5PB36</a> for sampling design and methodological details. </p> <p>This dataset contains the files required to run the code in <a href="https://github.com/MCabreraBrufau/Restore4Cs_GHG_chamber_fluxes" target="_blank" rel="noopener">Restore4Cs_GHG_chamber_fluxes</a>. Running the code produces, for each UniqueID CO2 and CH4 time series, flux estimates using three approaches: (i) a two-point method, where the flux is calculated from the net concentration change throughout the incubation using the average (10 s) initial and final concentrations; (ii) a linear model (LM); and (iii) a non-linear (HM) (Hutchinson and Mosier, 1981) regression model. A "best.model" is selected among the previous three based on ebullition presence/absence and on a set of objective criteria for model-fit quality metrics.</p> <p>This dataset contains: </p> <ol> <li> <p>"RData_timeseries.rar" folder, containing RData files with raw CO2 and CH4 concentration time series obtained with three portable gas analyzers (Li-COR 7810, Picarro G4301, GLA132-GGA). Organized as 1 file per sampling session, named as site_gasAnalizer. Each file contains timestamp, GHG concentrations and instrument precision organized in columns "POSIX.time" "CO2dry_ppm" "CH4dry_ppb" "H2O_ppm" "CO2_prec" "CH4_prec" "H2O_prec".</p> </li> <li> <p>"Auxfiles" folder, containing 4 csv files with incubation details:</p> <ul> <li> <p>co2_auxfile.csv and ch4_auxfile.csv: these files contain the details of each incubation (identified by column "UniqueID") required to calculate the instantaneous GHG flux with goFlux package. Due to distinct patterns and artifacts in the CO2 and CH4 time series of the same "UniqueID" incubation, different cropping decisions were implemented for each gas, leading to different "start.time", "duration" and "co2/ch4_decission". Columns are: </p> <ul> <li> <p>"UniqueID": identifier of each static chamber incubation.</p> </li> <li> <p>"subsite": code specifying the wetland site where the incubation was performed.</p> </li> <li> <p>"gas_analiser": instrument used to record GHG concentration. One of "Picarro" (Picarro G4301), "LI-COR" (Li-COR 7810) or "Los Gatos" (GLA132-GGA).</p> </li> <li> <p> "start.time": initial POSIX time of incubation to consider for flux calculation.</p> </li> <li> <p>"duration": seconds of incubation to consider for flux calculation.</p> </li> <li> <p>"water_depth": centimetres of water at chamber position.</p> </li> <li> <p>"Area": base area of chamber in squared centimeters.</p> </li> <li> <p>"Vtot": total volume of chamber in Litres.</p> </li> <li> <p>"Tcham": initial temperature (ºC).</p> </li> <li> <p>"Pcham": initial pressure (KPa).</p> </li> <li> <p>"strata": classification of substrate where incubation was performed. One of "vegetated", "open water", "bare".</p> </li> <li> <p>"chamberType": type of chamber used, either "floating" (semi-espherical chamber) or "tube" (modular cylindricar chamber).</p> </li> <li> <p>"lightCondition": opacity of chamber, either "transparent" or "dark".</p> </li> <li> <p>"co2/ch4_decission": whether the incubation timeseries can be used to obtain an appropriate flux for the particular GHG species. Either "ok" or "discard" (based on visual inspection of timeseries and on field-notes). </p> </li> </ul> </li> <li> <p>ebullition_inspection.csv: This file contains the recording of presence of ebullitive dynamics in each CH4 time series, identified visually. This is used to help the selection of the most-appropriate model to calculate the CH4 flux. Contains only 3 columns: "UniqueID", "ch4_decission" (same as ch4_auxfile.csv) and "visual_ebullition" (T/F). </p> </li> <li> <p>Original_incubations_crop_decissions.csv: This file contains the original start.time and duration for each UniqueID originating from field recordings of chamber closure and opening times. Additionally, the cropping decisions (in seconds) implemented after visual inspection of each gas time series in combination with field-notes are included. Decisions to completely discard an incubation's gas time series (co2, ch4 or both) due to strong artifacts or wrong manipulations are also recorded. This file can be used to re-process the dataset by creating new auxfiles that implement different cropping decissions. Columns are:</p> <ul> <li> <p>"UniqueID": identifier of each static chamber incubation.</p> </li> <li> <p>"og.start.time": original POSIX time of incubation start (recorded in the field)</p> </li> <li> <p>"og.duration": original elapsed seconds from incubation start to incubation end (recorded in the field)</p> </li> <li> <p>"co2_crop_start_s": seconds to crop at the start of incubation for CO2 flux calculation (co2_auxfile$start.time= og.start.time + co2_crop_start_s)</p> </li> <li> <p>"co2_crop_end_s": seconds to crop at the endof incubation for CO2 flux calculation (co22_auxfile$duration = og.duration - co2_crop_end_s)</p> </li> <li> <p>"co2_decission": whether the incubation can be used for CO2 flux calculation (ok/discard)</p> </li> <li> <p>"co2_obs_inspection": notes after visual inspection</p> </li> <li> <p>"ch4_crop_start_s", "ch4_crop_end_s", "ch4_decission" and "ch4_obs_inspection" columns have the same information for each incubation UniqueID but referring to the CH4 timeseries. </p> </li> </ul> </li> </ul> </li> </ol> |
| title | Raw GHG static chamber data of RESTORE4Cs project (CO2 and CH4 concentration time series and incubation details) |
| topic | Greenhouse Gases Carbon Dioxide Methane Wetlands |
| url | https://doi.org/10.5281/zenodo.18803756 |