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Throughout this analysis, the following naming conventions for objects (data sets) and variables are used.

1 Nomenclature of objects and data sets

The following names should be identical for stored files and objects in R environment

source
- tx: data recorded on SV Tina V, where x is replaced and indicates following data sets:
  - s: Sea-Bird SBE 16 sensor
  - h: Contros HydroC CO2 sensor
  - t: track data (coordinates + timestamp)
  - m: ts + th + tt merged (variables within tm are interpolated to a common time stamp)
  - b: discrete bottle samples
- fm: data recorded on SOOP Finnmaid
- og: data recorded on Ostergarnsholm ICOS flux tower
- gt: GETM (high-res huydographical model)
- mp: bathymetric map
subsetting and modification levels
- profiles vs surface: operation mode SV Tina V
- ID: mean values for cruise (reduced temporal resolution)
- daily: daily mean values
- long: data stored in long format (all observations in only 2 columns “var” and “value”)
- fix: constant, unique values such as long-term means, starting dates, etc
- iCT: includes cumulative numbers as iCT estimates
- NCP: includes cumulative numbers as NCP estimates
- CT_tem: data subset to analyse changes of CT with tem
- 3d vs 2d: surface vs depth resolved GETM data

2 Nomenclature of variables

Descriptive variables
- date
- date_time
- date_time_ID: mean date of cruise
- date_time_ID_diff: time differences in between cruises
- date_time_ID_ref: mean date in between cruises corresponding to observed incremental changes
- station: sampling location
- ID: character identifying starting date of cruise as YYMMDD (this is often one day before the date_time_ID, because cruises usually lasted for 1-2 days)
- dep: water depth in meters, can be gridded to 1m depth intervals
- lat
- lon
- deployment: running number of deployments
- Zero: Zeroing period of HydroC Sensor
- Flush: Period following zero, reading recovers to ambient value
- mixing: Two phases of the Flush period
Observed variables: column names, or identifier in column “var” for long-format tables
- pCO2: partial pressure of carbon dioxide, with following postfix indicating manipulation level
  - _analog: analog HydroC signal recorded on SeaBird CTD
  - _raw: HydroC signal recorded internally
  - _corr: pCO2_raw postprocessed by manufacturer
  - _equi: pCO2_corr at the end of an in-water equilibration period at constant depth
  - _RT: Response time corrected pCO2_corr
  - _RT_mean: running mean of pCO2_RT
  - none: pCO2_RT_mean gridded to regular depth levels
- sal
- tem
- CT_star: CT normalized to AT, or calculated from pCO2, temperature, and fixed AT, S (please note that this variable is referred to as C_T* in some plots and the accompanying manuscript)
- CT: Measured dissolved inorganic carbon
- AT: Measured total alkalinity
- U10: wind speed at 10m
- mld: mixed or mixing layer depth
Variable name extension
- mean: mean value
- sd: standard deviation
- min: min value
- max: max value
- int: interpolated value
- grid: value gridded to a coarser resolution
- diff: difference to previous value
- diff_daily: difference to previous value divided by number of days
- delta: offset from an alternative estimate of the same parameter
- i: intergrated over depth
- cum: cumulative value over time
- sign: identifier for pos. or neg. differences
- rel: relative to some absolute value
p_XXX: ggplot object

sessionInfo()

R version 4.0.3 (2020-10-10)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 19042)

Matrix products: default

locale:
[1] LC_COLLATE=English_Germany.1252  LC_CTYPE=English_Germany.1252   
[3] LC_MONETARY=English_Germany.1252 LC_NUMERIC=C                    
[5] LC_TIME=English_Germany.1252    

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] workflowr_1.6.2

loaded via a namespace (and not attached):
 [1] Rcpp_1.0.5      rstudioapi_0.13 whisker_0.4     knitr_1.30     
 [5] magrittr_2.0.1  R6_2.5.0        rlang_0.4.10    stringr_1.4.0  
 [9] tools_4.0.3     xfun_0.19       git2r_0.27.1    htmltools_0.5.0
[13] ellipsis_0.3.1  rprojroot_2.0.2 yaml_2.2.1      digest_0.6.27  
[17] tibble_3.0.4    lifecycle_0.2.0 crayon_1.3.4    later_1.1.0.1  
[21] vctrs_0.3.6     promises_1.1.1  fs_1.5.0        glue_1.4.2     
[25] evaluate_0.14   rmarkdown_2.6   stringi_1.5.3   compiler_4.0.3 
[29] pillar_1.4.7    httpuv_1.5.4    pkgconfig_2.0.3

Nomenclature used in this project

Jens Daniel Müller

18 May, 2021

1 Nomenclature of objects and data sets

2 Nomenclature of variables