Size harmonizing planktonic Foraminifera number concentrations in the water column
Data and R code for " Size harmonizing planktonic Foraminifera number concentrations in the water column " by Sonia Chaabane, Thibault de Garidel-Thoron, Xavier Giraud, Julie Meilland, Geert-Jan A. Brummer, Lukas Jonkers, P. Graham Mortyn, Mattia Greco, Nicolas Casajus, Olivier Sulpis, Mic...
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Online Access: | https://zenodo.org/record/7437720 https://doi.org/10.5281/zenodo.7437720 |
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ftzenodo:oai:zenodo.org:7437720 2023-09-26T15:22:14+02:00 Size harmonizing planktonic Foraminifera number concentrations in the water column Chaabane, Sonia de Garidel-Thoron, Thibault Giraud, Xavier Meilland, Julie Brummer, Geert-Jan A. Jonkers, Lukas Mortyn, P. Graham Greco, Mattia Casajus, Nicolas Kucera, Michal Olivier Sulpis Kuroyanagi, Azumi Howa, Hélène Beaugrand, Gregory Schiebel, Ralf 2023-07-14 https://zenodo.org/record/7437720 https://doi.org/10.5281/zenodo.7437720 unknown doi:10.5281/zenodo.7437719 https://zenodo.org/record/7437720 https://doi.org/10.5281/zenodo.7437720 oai:zenodo.org:7437720 info:eu-repo/semantics/restrictedAccess Planktonic Foraminifera size fraction vertical distribution FORCIS database info:eu-repo/semantics/other dataset 2023 ftzenodo https://doi.org/10.5281/zenodo.743772010.5281/zenodo.7437719 2023-08-29T22:59:29Z Data and R code for " Size harmonizing planktonic Foraminifera number concentrations in the water column " by Sonia Chaabane, Thibault de Garidel-Thoron, Xavier Giraud, Julie Meilland, Geert-Jan A. Brummer, Lukas Jonkers, P. Graham Mortyn, Mattia Greco, Nicolas Casajus, Olivier Sulpis, Michal Kucera, Azumi Kuroyanagi, Hélène Howa, Gregory Beaugrand, Ralf Schiebel The codes serve to generate the new normalization approach in order to not estimate number concentration of planktonic Foraminifera (ind/m3) in the finer and larger size fractions than the collection size fraction range. We use data from the FORCIS database that have been collected from the global ocean at different depths over the past century. We find a general cumulative distribution over the size fractions that can be described using a Michaelis Menten function. This yields multiplication factors by which one fraction can be normalized to any other size fraction equal to or larger than 100 µm. The resulting size normalization model was tested with data from various depths and compared to an earlier size normalization solution. Scripts written by Sonia Chaabane DATA SOURCES * FORCIS database https://doi.org/10.5281/zenodo.7390791 DATA 1. data_raw_from_excel.RDS CODES 1. Prepare_data.R: Read the data and prepare it for the analyses 2. Calculate_f&Shalf.R: Analyse the data and build the model 3. Model_validation.R: compare the actual vs. estimated number concentration 4. Berger_number_concentration_estimations.R: compare the actual vs. estimated number concentration using Berger 1969 correction scheme 5. Cross validation.R: Application of the FORCIS number concentration-size correction scheme on independent dataset 6. Modelfunctions.R Dataset Planktonic foraminifera Zenodo Sonia ENVELOPE(-63.485,-63.485,-65.087,-65.087) Hélène ENVELOPE(139.732,139.732,-66.624,-66.624) |
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Open Polar |
collection |
Zenodo |
op_collection_id |
ftzenodo |
language |
unknown |
topic |
Planktonic Foraminifera size fraction vertical distribution FORCIS database |
spellingShingle |
Planktonic Foraminifera size fraction vertical distribution FORCIS database Chaabane, Sonia de Garidel-Thoron, Thibault Giraud, Xavier Meilland, Julie Brummer, Geert-Jan A. Jonkers, Lukas Mortyn, P. Graham Greco, Mattia Casajus, Nicolas Kucera, Michal Olivier Sulpis Kuroyanagi, Azumi Howa, Hélène Beaugrand, Gregory Schiebel, Ralf Size harmonizing planktonic Foraminifera number concentrations in the water column |
topic_facet |
Planktonic Foraminifera size fraction vertical distribution FORCIS database |
description |
Data and R code for " Size harmonizing planktonic Foraminifera number concentrations in the water column " by Sonia Chaabane, Thibault de Garidel-Thoron, Xavier Giraud, Julie Meilland, Geert-Jan A. Brummer, Lukas Jonkers, P. Graham Mortyn, Mattia Greco, Nicolas Casajus, Olivier Sulpis, Michal Kucera, Azumi Kuroyanagi, Hélène Howa, Gregory Beaugrand, Ralf Schiebel The codes serve to generate the new normalization approach in order to not estimate number concentration of planktonic Foraminifera (ind/m3) in the finer and larger size fractions than the collection size fraction range. We use data from the FORCIS database that have been collected from the global ocean at different depths over the past century. We find a general cumulative distribution over the size fractions that can be described using a Michaelis Menten function. This yields multiplication factors by which one fraction can be normalized to any other size fraction equal to or larger than 100 µm. The resulting size normalization model was tested with data from various depths and compared to an earlier size normalization solution. Scripts written by Sonia Chaabane DATA SOURCES * FORCIS database https://doi.org/10.5281/zenodo.7390791 DATA 1. data_raw_from_excel.RDS CODES 1. Prepare_data.R: Read the data and prepare it for the analyses 2. Calculate_f&Shalf.R: Analyse the data and build the model 3. Model_validation.R: compare the actual vs. estimated number concentration 4. Berger_number_concentration_estimations.R: compare the actual vs. estimated number concentration using Berger 1969 correction scheme 5. Cross validation.R: Application of the FORCIS number concentration-size correction scheme on independent dataset 6. Modelfunctions.R |
format |
Dataset |
author |
Chaabane, Sonia de Garidel-Thoron, Thibault Giraud, Xavier Meilland, Julie Brummer, Geert-Jan A. Jonkers, Lukas Mortyn, P. Graham Greco, Mattia Casajus, Nicolas Kucera, Michal Olivier Sulpis Kuroyanagi, Azumi Howa, Hélène Beaugrand, Gregory Schiebel, Ralf |
author_facet |
Chaabane, Sonia de Garidel-Thoron, Thibault Giraud, Xavier Meilland, Julie Brummer, Geert-Jan A. Jonkers, Lukas Mortyn, P. Graham Greco, Mattia Casajus, Nicolas Kucera, Michal Olivier Sulpis Kuroyanagi, Azumi Howa, Hélène Beaugrand, Gregory Schiebel, Ralf |
author_sort |
Chaabane, Sonia |
title |
Size harmonizing planktonic Foraminifera number concentrations in the water column |
title_short |
Size harmonizing planktonic Foraminifera number concentrations in the water column |
title_full |
Size harmonizing planktonic Foraminifera number concentrations in the water column |
title_fullStr |
Size harmonizing planktonic Foraminifera number concentrations in the water column |
title_full_unstemmed |
Size harmonizing planktonic Foraminifera number concentrations in the water column |
title_sort |
size harmonizing planktonic foraminifera number concentrations in the water column |
publishDate |
2023 |
url |
https://zenodo.org/record/7437720 https://doi.org/10.5281/zenodo.7437720 |
long_lat |
ENVELOPE(-63.485,-63.485,-65.087,-65.087) ENVELOPE(139.732,139.732,-66.624,-66.624) |
geographic |
Sonia Hélène |
geographic_facet |
Sonia Hélène |
genre |
Planktonic foraminifera |
genre_facet |
Planktonic foraminifera |
op_relation |
doi:10.5281/zenodo.7437719 https://zenodo.org/record/7437720 https://doi.org/10.5281/zenodo.7437720 oai:zenodo.org:7437720 |
op_rights |
info:eu-repo/semantics/restrictedAccess |
op_doi |
https://doi.org/10.5281/zenodo.743772010.5281/zenodo.7437719 |
_version_ |
1778147808577060864 |