Pinned Repositories
2016_class_CMR
capture-mark-recapture class with Noble Hendrix and Billy Ernst in Chile 2016
2018_FSH556
Class materials for FSH556: Spatio-temporal models for ecologists in spring 2018 at UW
2024_FSH556
Materials for UW Class FSH 556 "Spatio-Temporal Models for Ecologists" in Spring 2024
Conway-Maxwell-Poisson
R package for calculating probability mass function or simulating draws from a Conway-Maxwell-Poisson distributimon
FishData
Compile and harmonize catch rates from fishery-independent surveys of fish populations
mixed-effects
Example code for mixed-effects modelling paper
spatial_delay-difference
Spatial delay-difference model
spatial_DFA
Spatial dynamic factor analysis, for estimating spatiotemporal density dependence in community dynamics
spatial_factor_analysis
Spatial factor analysis: a tool for decomposing species density into a small number of latent maps
Spatio-temporal-models-for-ecologists
Code associated with textbook "Spatio-Temporal Models for Ecologists"
James-Thorson's Repositories
James-Thorson/2018_FSH556
Class materials for FSH556: Spatio-temporal models for ecologists in spring 2018 at UW
James-Thorson/FishData
Compile and harmonize catch rates from fishery-independent surveys of fish populations
James-Thorson/spatial_factor_analysis
Spatial factor analysis: a tool for decomposing species density into a small number of latent maps
James-Thorson/mixed-effects
Example code for mixed-effects modelling paper
James-Thorson/Spatio-temporal-models-for-ecologists
Code associated with textbook "Spatio-Temporal Models for Ecologists"
James-Thorson/2024_FSH556
Materials for UW Class FSH 556 "Spatio-Temporal Models for Ecologists" in Spring 2024
James-Thorson/spatial_DFA
Spatial dynamic factor analysis, for estimating spatiotemporal density dependence in community dynamics
James-Thorson/Conway-Maxwell-Poisson
R package for calculating probability mass function or simulating draws from a Conway-Maxwell-Poisson distributimon
James-Thorson/spatial_delay-difference
Spatial delay-difference model
James-Thorson/2016_class_CMR
capture-mark-recapture class with Noble Hendrix and Billy Ernst in Chile 2016
James-Thorson/CCSRA
Software for implementing catch curve stock reduction analysis (CCSRA; Thorson and Cope 2014 Fish Res) implemented in Template Model Builder
James-Thorson/MIST
Multispecies Interactions Spatio-Temporal model (based on Ives et al. 2003 and co-integration models)
James-Thorson/James-Thorson.github.io
:triangular_ruler: A flexible two-column Jekyll theme. Perfect for personal sites, blogs, and portfolios hosted on GitHub or your own server.
James-Thorson/Paulik_modelling
James-Thorson/state_space_production_model
state-space surplus production model with Schaefer production function
James-Thorson/DevelopersWorkshop2017
James-Thorson/Dirichlet-Multinomial
Testing Dirichlet-Multinomial option in SS V3.3
James-Thorson/Elasticity
Compute sensitivity and elasticity of fisheries management targets to changes in biological parameters
James-Thorson/EOFR
Package to conduct EOF regression
James-Thorson/June2016-Developers-Workshop
James-Thorson/length-based-spatial-regression
regression model for spatial analysis of catch rates that are disaggregated by length
James-Thorson/mbcrump.github.io
My Blog
James-Thorson/movement_tools
Computational tools for advective-diffusive movement on a grid or mesh
James-Thorson/NLTS
Nonlinear time series methods (Simplex + Smap) in R
James-Thorson/spatial_production
Spatial surplus production model
James-Thorson/ss3sim
An R package for stock-assessment simulation with Stock Synthesis
James-Thorson/SSbootstrap
R package for conducting a parametric bootstrap for Stock Synthesis
James-Thorson/TMB_experiments
Experiments involving TMB
James-Thorson/utilities
General-purpose tools for programming
James-Thorson/wham
State-space, age-structured fish stock assessment model