Publications by Beni Stocker
Document
Model formulation This is from the QUINCY model (Thum et al., 2019 GMD). calc_phi_maint <- function(c_labl, c_labl_target){ lambda_maint <- 4.0 k_maint <- 1.6 exp(-(lambda_maint * c_labl / c_labl_target)^k_maint) } calc_phi_store <- function(c_resv, c_resv_target){ lambda_store <- 2.0 k_store <- 3.0 1 - exp(-(lambda_store * c_resv / ...
1284 sym R (3955 sym/10 pcs) 8 img
Document
Collect point-scale climate and soil information Beni Stocker library(ingestr) library(dplyr) ## ## Attaching package: 'dplyr' ## The following objects are masked from 'package:stats': ## ## filter, lag ## The following objects are masked from 'package:base': ## ## intersect, setdiff, setequal, union library(tidyr) library(readr) library...
1534 sym Python (1274 sym/10 pcs)
Document
library(dplyr) ## ## Attaching package: 'dplyr' ## The following objects are masked from 'package:stats': ## ## filter, lag ## The following objects are masked from 'package:base': ## ## intersect, setdiff, setequal, union library(tidyr) library(ggplot2) library(rgdal) # for readOGR ## Loading required package: sp ## Please note that ...
1784 sym R (16583 sym/45 pcs) 4 img
Document
Full version Theory This is based on McMurtrie & Näsholm, 2017 New Phytologist (doi: 10.1111/nph.14927). The root length density per unit soil volume is a function of root biomass \(C_r\) and morphological parameters (density: \(\rho_r\), rooting depth \(z_r\), root radius \(r_0\)). \[ l_r = \frac{C_r}{2 \pi r_0 \rho_r \ z_r} \] The half-distan...
2589 sym R (7492 sym/16 pcs) 12 img
Document
knitr::opts_chunk$set(echo = TRUE) library(dplyr) ## ## Attaching package: 'dplyr' ## The following objects are masked from 'package:stats': ## ## filter, lag ## The following objects are masked from 'package:base': ## ## intersect, setdiff, setequal, union library(tidyr) library(ggplot2) library(rbeni) ## ## Attaching package: 'rbeni...
5456 sym R (22685 sym/90 pcs) 19 img
Document
Example using rsofun for P-model simulations The following describes the use of rsofun for an ensemble of site-scale P-model simulations, including steps for model calibration and evaluation (benchmarking). rsofun is designed in a modular and hierarchical fashion. This enables multiple setups within the same modelling framework. The P-model imple...
5203 sym R (10117 sym/49 pcs) 2 img
Document
Overview The package ingestr provides functions to extract (ingest) point data (given longitude, latitude, and required dates) from large global files or remote data servers and create time series at user-specified temporal resolution. This can be done for a set of sites at once, given a data frame containing the meta info for each site (see data...
4747 sym R (13016 sym/33 pcs) 3 img
Document
Essential functions Conductivity as a function of water potential The conductivity of an infinitesimally short xylem element can be described as a function of the water potential (\(\Psi\)), declining to half at a level \(\Psi_{50}\). \[ k(\Psi) = 0.5 ^ {\left( \Psi / \Psi_{50} \right) ^ b} \] Plotted with different shape parameter values \(b\)....
3327 sym R (9258 sym/14 pcs) 10 img
Document
Description You will investigate the apparent depression of photosynthesis rates in temperate and boreal forests in spring and after cold winters - a phenomenon that has been overlooked in global models. By combining remote sensing data, eddy covariance flux measurements, and modelling, you will find new solutions to an important challenge. Ecosy...
2977 sym 2 img
Document
Theory The P-model predicts an optimal ratio of \(c_i : c_a\), termed as \(\chi\), that balances the costs associated with maintaining the transpiration (\(E\)) stream and the carboxylation capacity \(V_{\text{cmax}}\). It can therefore be used to simulate the acclimation of the photosynthetic machinery to its environment - a mechanism that happe...
9395 sym R (10921 sym/51 pcs) 40 img