james-thorson Goto Github PK

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

ccsra

Software for implementing catch curve stock reduction analysis (CCSRA; Thorson and Cope 2014 Fish Res) implemented in Template Model Builder

conway-maxwell-poisson

R package for calculating probability mass function or simulating draws from a Conway-Maxwell-Poisson distributimon

developersworkshop2017

dirichlet-multinomial

Testing Dirichlet-Multinomial option in SS V3.3

elasticity

Compute sensitivity and elasticity of fisheries management targets to changes in biological parameters

eofr

Package to conduct EOF regression

fishdata

Compile and harmonize catch rates from fishery-independent surveys of fish populations

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.

june2016-developers-workshop

length-based-spatial-regression

regression model for spatial analysis of catch rates that are disaggregated by length

mbcrump.github.io

My Blog

mist

Multispecies Interactions Spatio-Temporal model (based on Ives et al. 2003 and co-integration models)

mixed-effects

Example code for mixed-effects modelling paper

movement_tools

Computational tools for advective-diffusive movement on a grid or mesh

nlts

Nonlinear time series methods (Simplex + Smap) in R

paulik_modelling

spatial_condition_factor

Spatial analysis tools for estimating spatial and spatiotemporal variation in individual condition

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

spatial_production

Spatial surplus production model

spatio-temporal-models-for-ecologists

Code associated with textbook "Spatio-Temporal Models for Ecologists"

ss3sim

An R package for stock-assessment simulation with Stock Synthesis

ssbootstrap

R package for conducting a parametric bootstrap for Stock Synthesis

state_space_production_model

state-space surplus production model with Schaefer production function

tmb_experiments

Experiments involving TMB

utilities

General-purpose tools for programming