{"status":"OK","data":{"id":16253,"identifier":"dans-2c7-vdat","persistentUrl":"https://doi.org/10.17026/DANS-2C7-VDAT","protocol":"doi","authority":"10.17026","separator":"/","publisher":"DANS Data Station Physical and Technical Sciences","publicationDate":"2017-12-31","storageIdentifier":"surf://10.17026/dans-2c7-vdat","effectiveDatasetFileCountLimit":10000,"datasetFileUploadsAvailable":9992,"datasetType":"dataset","locks":[],"latestVersion":{"id":483,"datasetId":16253,"datasetPersistentId":"doi:10.17026/DANS-2C7-VDAT","datasetType":"dataset","storageIdentifier":"surf://10.17026/dans-2c7-vdat","versionNumber":2,"internalVersionNumber":19,"versionMinorNumber":0,"versionState":"RELEASED","latestVersionPublishingState":"RELEASED","deaccessionLink":"","distributionDate":"2019-08-19","productionDate":"2017-12-31","lastUpdateTime":"2023-11-10T19:06:32Z","releaseTime":"2017-12-30T23:00:00Z","createTime":"2023-11-10T19:06:29Z","publicationDate":"2017-12-31","citationDate":"2017-12-31","effectiveDatasetFileCountLimit":10000,"datasetFileUploadsAvailable":9992,"license":{"name":"DANS Licence","uri":"https://doi.org/10.17026/fp39-0x58","iconUri":""},"termsOfAccess":"N/a","fileAccessRequest":false,"metadataBlocks":{"citation":{"displayName":"Citation Metadata","name":"citation","fields":[{"typeName":"title","multiple":false,"typeClass":"primitive","value":"Model overfitting using hyperspectral remote sensing"},{"typeName":"otherId","multiple":true,"typeClass":"compound","value":[{"otherIdAgency":{"typeName":"otherIdAgency","multiple":false,"typeClass":"primitive","value":"DANS-KNAW"},"otherIdValue":{"typeName":"otherIdValue","multiple":false,"typeClass":"primitive","value":"easy-dataset:131870"}}]},{"typeName":"author","multiple":true,"typeClass":"compound","value":[{"authorName":{"typeName":"authorName","multiple":false,"typeClass":"primitive","value":"A. Duarte Rocha"},"authorAffiliation":{"typeName":"authorAffiliation","multiple":false,"typeClass":"primitive","value":"Faculty of Geo-Information Science and Earth Observation (ITC), University of Twente"}}]},{"typeName":"datasetContact","multiple":true,"typeClass":"compound","value":[{"datasetContactName":{"typeName":"datasetContactName","multiple":false,"typeClass":"primitive","value":"M Th  Koelen"},"datasetContactAffiliation":{"typeName":"datasetContactAffiliation","multiple":false,"typeClass":"primitive","value":"Faculty of Geo-Information Science and Earth Observation"}}]},{"typeName":"dsDescription","multiple":true,"typeClass":"compound","value":[{"dsDescriptionValue":{"typeName":"dsDescriptionValue","multiple":false,"typeClass":"primitive","value":"<p>The growing number of narrow spectral bands in hyperspectral remote sensing improves the capacity to describe and predict biological processes in ecosystems. But it also poses a challenge to fit empirical models based on such high dimensional data, which often contain correlated and noisy predictors. As sample sizes, to train and validate empirical models, seem not to be increasing at the same rate, overfitting has become a serious concern. Overly complex models lead to overfitting by capturing more than the underlying relationship, and also through fitting random noise in the data. Many regression techniques claim to overcome these problems by using different strategies to constrain complexity, such as limiting the number of terms in the model, by creating latent variables or by shrinking parameter coefficients. This paper is proposing a new method, named Naïve Overfitting Index Selection (NOIS), which makes use of artificially<br>generated spectra, to quantify the relative model overfitting and to select an optimal model complexity supported by the data. The robustness of this new method is assessed by comparing it to a traditional model selection based on cross-validation. The optimal model complexity is determined for seven different regression techniques, such as partial least squares regression, support vector machine, artificial neural network and tree-based regressions using five hyperspectral datasets. The NOIS method selects less complex models, which present accuracies similar to the cross-validation method. The NOIS method reduces the chance of overfitting, thereby avoiding models that present accurate predictions that<br>are only valid for the data used, and too complex to make inferences about the underlying process.<br>Published by: International Society for Photogrammetry and Remote Sensing, Inc. (ISPRS), 2017.</p>"}}]},{"typeName":"subject","multiple":true,"typeClass":"controlledVocabulary","value":["Earth and Environmental Sciences"]},{"typeName":"keyword","multiple":true,"typeClass":"compound","value":[{"keywordValue":{"typeName":"keywordValue","multiple":false,"typeClass":"primitive","value":"Hyperspectral remote sensing and ecological trait"}}]},{"typeName":"language","multiple":true,"typeClass":"controlledVocabulary","value":["English"]},{"typeName":"productionDate","multiple":false,"typeClass":"primitive","value":"2017-12-31"},{"typeName":"distributionDate","multiple":false,"typeClass":"primitive","value":"2019-08-19"},{"typeName":"dateOfDeposit","multiple":false,"typeClass":"primitive","value":"2019-08-19"},{"typeName":"dataSources","multiple":true,"typeClass":"primitive","value":["1.\tLeaf Area Index (LAI) and canopy spectra (GER3700)\n\nDescription extracted from Darvishzadeh et al. (2008).\nDarvishzadeh, R., Skidmore, A., Schlerf, M., Atzberger, C., Corsi, F., Cho, M., 2008. LAI and chlorophyll estimation for a heterogeneous grassland using hyperspectral measurements. ISPRS J. Photogramm. Rem. Sens. 63 (4), 409–426.\n\nLeaf Area Index (LAI)\n\nNon-destructive measurements of leaf area index were taken using a Plant Canopy Analyzer (LAI-2000), an instrument produced by LICOR Inc. (Lincoln, NE USA). The measurements were taken under clear sky conditions, with a low solar elevation, and without direct sunlight reaching the sensor. Five bellow-canopy samples and a reference above-canopy radiation were collected to represent the, average, LAI.\n\nCanopy Spectra\n\nThe canopy spectra measurements were captured in the field from June 15 to July 15 in 2005 by the spectroradiometer GER3700 (Geophysical and Environmental Research Corporation, Buffalo, New York). The wavelength range was between 350 nm and 2500 nm with a spectral resolution of 3–16 nm. Measurements were collected on clear sunny days between 11:30 and 14:00 to reduce atmospheric perturbations and BRDF effects. The sensor captured a base area about 45cm in diameter. Up to 15 measurements per plot (1 m x 1 m) were recorded, changing the position slightly to represent the plot area. The average of the measures was used in order to reduce noise.\n\n2.\tLeaf Chlorophyll Content (LCC) and Hymap image\n\nDescription extracted from Darvishzadeh et al. (2011).\nDarvishzadeh, R., Atzberger, C., Skidmore, A., Schlerf, M., 2011. Mapping grassland leaf area index with airborne hyperspectral imagery: a comparison study of statistical approaches and inversion of radiative transfer models. ISPRS J. Photogramm. Rem. Sens. 66 (6), 894–906.\n\nLeaf Chlorophyll Content (LCC)\n\nLCC was measured in the field by the instrument SPAD-502 Leaf Chlorophyll Meter (Minolta, Inc.). SPAD values are unitless measurements based on the transmittance in red (650 nm) and NIR (920 nm) wavelength regions. Many studies have demonstrated that these values are highly correlated with the leaf chlorophyll concentrations derived from chemical processes. A total of 30 leaves of main, dominant species were measured and averaged to represent the LCC in each plot.\n\nHymap image\n\nHyperspectral airborne HyMap sensor data were acquired over the study area on 4 July 2005. The sensor contained 126 spectral channels in a wavelength range of 436–2485 nm with a spectral resolution of between 13 nm and 17 nm and a spatial resolution of 4m. \n\n3. Leaf Water Content (LWC) and FTIR spectrometer\n\nDescription extracted from Buitrago et al. (2016). Data are publicly accessible at https://easy.dans.knaw.nl/ui/?wicket:bookmarkablePage=:nl.knaw.dans.easy.web.search.pages.PublicSearchResultPage&q=buitrago. \nBuitrago, M.F., Groen, T.A., Hecker, C.A., Skidmore, A.K., 2016. Changes in thermal infrared spectra of plants caused by temperature and water stress. ISPRS J. Photogramm. Rem. Sens. 111, 22–31.\n\nLeaf Water Content (LWC)\n\nLWC was destructively measured at each stage of the experiment using leaves from the same cohort as the marked leaves, which were used for the spectral measurements. The relative gravimetric LWC was calculated using the equation: LWC = 100 * (Ww - Wd)/Ww, where Ww is the weight of the fresh leaf, and Wd is the weight of the dried leaf. Leaves were dried in an oven at 65 oC. Cuticle thickness was measured from a thin transverse section of the marked leaves, using a LeitzWetzlarmicroscope, with an amplification of 250x. This trait was measured at least 3 times in each leaf and the measurements averaged and expressed in lm.\n\nLeaf Spectral\n\nAll plants were measured with a Bruker Vertex 70 FTIR spectrometer, adapted with an external integrating sphere. An Infragold plate with known spectral emissivity was used to calibrate each measurement. Spectra were measured in the range 4000–600 cm-1 (2.5–16.7 lm) with a resolution of 4 cm-1. Per leaf eight samples, with 520 scans per sample, were taken. These measurements were averaged and the results were calculated per leaf. Five leaves per plant were measured in the same way for a total of 75 leaves per treatment at every stage of the experiment. \n\n4. Moisture and laboratory spectroscopy\n\nData are publicly accessible at https://doi.org/10.4121/uuid:866135c2-2be3-4b74-8f9c-922505285a7b. Description extracted from Nolet and Roosjen (2014). \nNolet, C., Roosjen, P., 2014. Laboratory Spectroscopy Experiment: Spectral Reflectance of Beach Sand as Function of Surface Moisture Content With Sample of Beach Sand Collected From the Sand Motor, the Netherlands. Wageningen University.\n\nMoisture\n\nA representative sample of beach sand was collected from the ‘Sand Motor’ (GPS location: 52.0520N 4.1840E). Before the experiment, the sample was coarsely sieved (2 mm) to remove shells and constituents other than sand. The sand, composed of quartz with some feldspar, had a dry bulk density rb of 1.655 gcm. For each experiment, a sub-sample of the collected beach sand was placed in a matte black petridish (5 cm radius, 1.5 cm height), filling it up to the rim, and oven dried for 24 h at 105 oC. The sample was, after measuring its initial weight, slowly saturated with distilled water. The water was allowed to distribute itself uniformly throughout the sample and excess free water was drained from the surface. The sample was placed on a data-logging weighing scale with milligram precision.\n\nLaboratory spectroscopy\n\nA laboratory spectroscopy experiment was conducted twice to observe spectral reflectance in the optical domain (350–2500 nm) under different moisture conditions. The spectral reflectance was measured at 1 nm intervals using an ASD Fieldspec Pro spectrometer (Analytical Spectra Devices, Boulder, CO). A 40,640 cm white Spectralon panel (LabSphere, Inc., North Sutton, NH) was used to calibrate the spectrometer. The spectrometer was fitted with a 10 FOV foreoptic which was directed at nadir at 40 cm distance from the sample. As an artificial light source, a 900W Quartz Tungsten Halogen (QTH) lamp was placed 70 cm from the sample at a 300 zenith angle. The spectrometer was programmed to take a measurement every 5 min. Each time the weight of the sample was also measured and stored.\n\n5. Soil Organic Carbon and VNIR spectral library\n\nThis spectral library consists of visible near infrared spectra of 785 soil profiles (4437 samples) selected from the Soil Information System (ISIS) of the International Soil Reference and Information Centre (ISRIC). The samples consist of all physically archived samples at ISRIC for which soil attribute data was available in 2004.\nData available at http://africasoils.net/.: \nWorld Agroforestry Centre (ICRAF) and ISRIC – World Soil Information (2010). ICRAF-ISRIC Soil VNIR Spectral Library. World Agroforestry Centre (ICRAF), Nairobi, Kenya. \n\nOrganic Carbon Content (OCC)\n\nSoil samples were air-dried, clods crushed and the resulting sample material sieved through a 2 mm sieve prior to further analysis. Organic carbon content was determined using the Walkley-3. Black procedure. This involves a wet combustion of the organic matter with a mixture of potassium dichromate and sulfuric acid at about 125 oC. Soil property attributes were provided by ISRIC and had been analysed according to the ISRIC ‘‘Procedures for soil analysis” (Van Reeuwijk, 2002).\nVan Reeuwijk, L.P. (Ed.), 2002. Procedures for Soil Analysis. sixth ed. Wageningen, ISRIC. Tech. Pap. 9. Available at: <http://www.isric.org/Isric/Webdocs/Docs/ISRIC_TechPap09_2002.pdf>.\n\nVNIR Spectral\n\nSoil diffuse reflectance spectra were recorded for each library sample using a FieldSpec FR spectroradiometer (Analytical Spectral Devices, Boulder, CO) at wavelengths from 0.35 to 2.5 m with a spectral sampling interval of 1 nm. Samples were illuminated from below using a high-intensity source probe. About 20 g of air-dried soil, ground to pass through a 2-mm sieve, was placed into 7.4 cm diameter Duran glass Petri dishes to give a sample height of about 1 cm. To sample within-dish variation, reflectance spectra were recorded at two positions, successively rotating the sample dish through 90o between readings and an average of 25 spectra was recorded at each position to minimize instrument noise. Before reading each sample 10 white reference spectra were recorded using calibrated spectralon (Labsphere, Sutton, NH, USA) placed in a glass petri dish. Reflectance readings for each wavelength band were expressed relative to the average of the white reference readings.The 1 nm interval spectra were resampled by selecting every tenth-nanometer value from 0.35 to 2.5 lm to give a total of 216 data points for each spectrum."]}]},"dansRights":{"displayName":"Rights Metadata","name":"dansRights","fields":[{"typeName":"dansRightsHolder","multiple":true,"typeClass":"primitive","value":["Unknown"]},{"typeName":"dansPersonalDataPresent","multiple":false,"typeClass":"controlledVocabulary","value":"Unknown"}]},"dansRelationMetadata":{"displayName":"Relation Metadata","name":"dansRelationMetadata","fields":[{"typeName":"dansAudience","multiple":true,"typeClass":"primitive","value":["https://www.narcis.nl/classification/D15000"],"expandedvalue":[{"@id":"https://www.narcis.nl/classification/D15000","termName":[{"lang":"nl","value":"Aardwetenschappen"},{"lang":"en","value":"Earth sciences"}],"vocabularyUri":"https://www.narcis.nl/classification/"}]},{"typeName":"dansRelation","multiple":true,"typeClass":"compound","value":[{"dansRelationType":{"typeName":"dansRelationType","multiple":false,"typeClass":"controlledVocabulary","value":"references"},"dansRelationText":{"typeName":"dansRelationText","multiple":false,"typeClass":"primitive","value":"The Naïve Overfitting Index Selection (NOIS): A new method to optimize model complexity for hyperspectral data"},"dansRelationURI":{"typeName":"dansRelationURI","multiple":false,"typeClass":"primitive","value":"https://www.sciencedirect.com/science/article/abs/pii/S0924271617303088"}},{"dansRelationType":{"typeName":"dansRelationType","multiple":false,"typeClass":"controlledVocabulary","value":"is part of"},"dansRelationText":{"typeName":"dansRelationText","multiple":false,"typeClass":"primitive","value":"Duarte Rocha, A. 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