Indeed, it is sometimes composed of the first letter of the program name attached to 2 numbers indicating the year of data collection and the age class (gj: spat, ga: half-grown or commercial size oysters) - 2 letters indicating the region attached to a 4-character site identifier- mnemonic passage. Its coding is not consistent throughout the dataset. Mnemonic_sampling: this is a concatenated field. Id_ind: the id of the individual oyster when code_param is INDVPOID or the id of the bag when code_param is INDVVIVNB, INDVPOID and TOTVIVPOI. For mass taken at the individual level (code_param = INDVPOID), the method is Pesée après lyophilisation or Pesée simple sans préparation (in English: weighing without preparation or weighing after lyophilization). For the number of alive and dead oysters (code_param = INDVVIVNB and INDVMORNB), the method used is comptage macroscopique (in English: macroscopic count). Method: the method used to obtain the data. ).įraction: either the measure was made at the bag level on which case the fraction is "Sans objet" = Not applicable or the measure was made at the individual level (code_param = INDVPOID), in which case the fraction indicates the part of the oyster that was measured: Chair totale égouttée or coquille (in English: total flesh drained or shell). ) (in English: grams or counting of individuals, cells. Unit_measure: the unit of measurement: Gramme or Unité de dénombrement (d'individus, de cellules. INDVVIVNB = number of alive oysters, INDVMORNB = number of dead oysters, INDVPOID = mass of the individual, TOTVIVPOI = total mass of alive individuals (i.e.
![oyster spat mortality rate oyster spat mortality rate](https://oysterhealthsydney.files.wordpress.com/2011/12/site-b2.jpg)
#Oyster spat mortality rate code
Param: the name of the measured parameter: Nombre d'individus morts, Nombre d'individus vivants, Poids de l'individu or Poids total des individus vivants (in English: number of dead oysters, number of alive oysters, mass of the individual and total mass of alive individuals).Ĭode_param: code of the measured parameter. Biométrie initiale (in English: initial biometrics) is equivalent to P0 (first data collected during the campaign). For example, data collection on corresponds to P1_S19. For intermediate operations, we use the previous name of the operation followed by an underscore and the number of the week. The name of the quarterly operation (P0, P1, P2, P3 or RF: last data collection). Blank cells indicate that this information was not available.ĭate: the date of data collection (format DD/MM/YYYY). Ploidy: the ploidy of the oysters: diploïdes or triploïdes (in English: diploid or triploid). Blank cells indicate that this information was not available. For example, 014-P-055.Ĭlass_age: the age class of the oyster: N0 (spat), J1 (half-grown) or A2 (commercial size). Mnemonic_site: the mnemonic is a unique identifier of the site and is constructed as follows: code of the marine area - P (for monitoring point) - order number of the monitoring location in the marine area. The first thing we did in this project is to keep only 18 columns and rename them. The table contains 571101 rows and 34 columns. This data set is a modified extraction (carried out on ) of the RESCO REMORA Database ( ) available in SEANOE, an academic publisher or marine research data. This script also computes the mean cumulative mortality and mean mass of oysters per date x site x class age combination.Ĭode/2_analysis_sigmoide.Rmd does the logistic and Gompertz models of the mean cumulative mortality and mean mass for spat and half-grown oysters.Īll the data needed to run the analyses are stored in data folder.Īll figures produced by the analysis are saved in figs folder and are labelled as they are in the manuscript.ĪllDataresco.csv is a csv file containing the raw observations of oyster growth and mortality recorded within the REMORA, RESCO and ECOSCOPA programs. All the scripts for the analyses can be found in code folder.Ĭode/0_map_sampling_location.R contains the code to recreate the map of the sampling location.Ĭode/1_cleaning_data.R contains the code for data cleaning. All analyses can thus be run without changing paths. R project automatically assigns the root directory to the directory in which the project is. Open the R project file in the downloaded folder. The project can be cloned or downloaded by clicking "Clone or download" at the top right of this page. This work is licensed under a Creative Commons Attribution 4.0 International License. It can recreate all analyses and figures in the text. This repository contains the data sets, analyses and figures of the above-mentioned paper.
![oyster spat mortality rate oyster spat mortality rate](https://oysterhealthsydney.files.wordpress.com/2012/11/cropped-img_4324.jpg)
#Oyster spat mortality rate series
Analyses and data from A 26-year time series of mortality and growth of the Pacific oyster C.