Package: ldsr 0.0.3

Hung Nguyen

ldsr: Linear Dynamical System Reconstruction

Streamflow (and climate) reconstruction using Linear Dynamical Systems. The advantage of this method is the additional state trajectory which can reveal more information about the catchment or climate system. For details of the method please refer to Nguyen and Galelli (2018) <doi:10.1002/2017WR022114>.

Authors:Hung Nguyen [aut, cre], Stefano Galelli [ctb]

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ldsr.pdf |ldsr.html✨
ldsr/json (API)

# Install 'ldsr' in R:
install.packages('ldsr', repos = c('https://critical-infrastructure-systems-lab.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/ntthung/ldsr/issues

Uses libs:
  • openblas– Optimized BLAS
  • c++– GNU Standard C++ Library v3
  • openmp– GCC OpenMP (GOMP) support library
Datasets:
  • NPannual - Annual streamflow at Nakhon Phanom
  • NPpc - Selected principal components
  • theta - LDS parameters

On CRAN:

Conda:

expectation-maximization-algorithmhydrologykalman-smootherlinear-dynamical-systemspaleoclimateopenblascppopenmp

4.86 score 8 stars 18 scripts 208 downloads 19 exports 35 dependencies

Last updated 5 years agofrom:593eeb790c. Checks:1 OK, 11 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 11 2025
R-4.5-win-x86_64NOTEMar 11 2025
R-4.5-mac-x86_64NOTEMar 11 2025
R-4.5-mac-aarch64NOTEMar 11 2025
R-4.5-linux-x86_64NOTEMar 11 2025
R-4.4-win-x86_64NOTEMar 11 2025
R-4.4-mac-x86_64NOTEMar 11 2025
R-4.4-mac-aarch64NOTEMar 11 2025
R-4.4-linux-x86_64NOTEMar 11 2025
R-4.3-win-x86_64NOTEMar 11 2025
R-4.3-mac-x86_64NOTEMar 11 2025
R-4.3-mac-aarch64NOTEMar 11 2025

Exports:calculate_metricscvLDScvPCRinv_boxcoxKGELDS_EM_restartLDS_reconstructionLDS_repmake_initmake_Zmetrics_with_transformnRMSENSEone_lds_cvone_LDS_repone_pcr_cvPCR_ensemble_selectionPCR_reconstructionRE

Dependencies:bootclicodetoolsdata.tabledigestdplRforeachglueiteratorslatticelifecyclelme4magrittrMASSMatrixmatrixStatsminqanlmenloptrpngR.methodsS3R.ooR.utilsrbibutilsRcppRcppArmadilloRcppEigenRdpackreformulasrlangsignalstringistringrvctrsXML

Streamflow Reconstruction with Linear Dynamical Systems

Rendered fromldsr.Rmdusingknitr::rmarkdownon Mar 11 2025.

Last update: 2020-04-20
Started: 2018-11-14

Readme and manuals

Help Manual

Help pageTopics
Reconstruction metricscalculate_metrics
Call a reconstruction methodcall_method
Pearson's correlationcorr
Cross validate LDS model. This is a wrapper for LDS_reconstructioncvLDS
Cross validation of PCR reconstruction.cvPCR
Exponential confidence intervalexp_ci
Inverse Box-Cox transforminv_boxcox
Implement Kalman smoothingKalman_smoother
Kling-Gupta EfficiencyKGE
Learn LDS with L-BFGS-BLDS_BFGS
Learn LDS with L-BFGS-BLDS_BFGS_with_update
Learn LDS modelLDS_EM
Learn LDS model with multiple initial conditionsLDS_EM_restart
Learn a linear dynamical system using Genetic Algorithm.LDS_GA
Learn LDS model.LDS_reconstruction
Multiple LDS replicatesLDS_rep
Make initial values for parameters.make_init
Make cross-validation folds.make_Z
Transform the estimates before calculating metricsmetrics_with_transform
Maximizing expected likelihood using analytical solutionMstep
Calculates the negative log-likelihoodnegLogLik
Annual streamflow at Nakhon PhanomNPannual
Selected principal componentsNPpc
Normalized root-mean-square errornRMSE
Nash-Sutcliffe EfficiencyNSE
One cross-validation runone_lds_cv
One LDS replicateone_LDS_rep
One cross-validation runone_pcr_cv
Select the best reconstructionPCR_ensemble_selection
Principal Component Regression ReconstructionPCR_reconstruction
Penalized likelihood objective functionpenalized_likelihood
State propagationpropagate
Reduction of ErrorRE
LDS parameterstheta
Converts theta from a vector (as used in GA) to list (as used in Kalman smoothing)vec_to_list