JaneSullivan-NOAA
Research Fish Biologist/Code-stodian Alaska Fisheries Science Center Personal account: https://github.com/jysullivan
Juneau, AK
Pinned Repositories
rema
A generalized random effects model for ABC apportionment and Tier 4/5 biomass estimation
adcomp
AD computation with Template Model Builder (TMB)
afsc_longline
Getting on the same page about AFSC longline survey Relative Population Numbers and Weights (RPN/RPWs)
atkawham
Bridge 2022 Atka mackerel assessment from amak to wham (growth branch)
bsai_orox
Bering Sea and Aleutian Islands Other Rockfish stock assessment
great_escape
Escape ring study to estimate length-based selectivity for a sablefish pot gear fishery.
iphc-rpn
Use International Pacific Halibut Commission (IPHC) setline survey effort data to calculate Relative Population Number (RPN) indices by species/complex
sablefish_condition
Sablefish condition indicators using length-weight residuals
seak_sablefish
NSEI sablefish stock assessment
shortspine_thornyhead_2023
2023 West Coast stock assessment for shortspine thornyhead
JaneSullivan-NOAA's Repositories
JaneSullivan-NOAA/sablefish_condition
Sablefish condition indicators using length-weight residuals
JaneSullivan-NOAA/atkawham
Bridge 2022 Atka mackerel assessment from amak to wham (growth branch)
JaneSullivan-NOAA/bsai_orox
Bering Sea and Aleutian Islands Other Rockfish stock assessment
JaneSullivan-NOAA/great_escape
Escape ring study to estimate length-based selectivity for a sablefish pot gear fishery.
JaneSullivan-NOAA/iphc-rpn
Use International Pacific Halibut Commission (IPHC) setline survey effort data to calculate Relative Population Number (RPN) indices by species/complex
JaneSullivan-NOAA/adcomp
AD computation with Template Model Builder (TMB)
JaneSullivan-NOAA/Age_Structured_Stock_Assessment_Model_Comparison
FIMS first test case where sigmaR=0
JaneSullivan-NOAA/bsai_shortraker
BSAI shortraker biomass estimation using a single survey index (bottom trawl survey; BTS) and two survey indices (BTS + longline survey relative population weights; LLS)
JaneSullivan-NOAA/babyFIMS
A scaled down version of FIMS in RTMB.
JaneSullivan-NOAA/compare_gap_products
Transition stock assessment queries for bottom trawl survey data to the new GAP_PRODUCTS schema
JaneSullivan-NOAA/dusky_northerns_appo
JaneSullivan-NOAA/gfdata
JaneSullivan-NOAA/goa_pcod
GOA Pacific cod assessment - WHAM addition
JaneSullivan-NOAA/goa_skates_rema
Estimating GOA skate biomass using the random effects model.
JaneSullivan-NOAA/goa_sst
Queries and random effects model code for the GOA shortspine thornyhead stock assessment
JaneSullivan-NOAA/lls_turbot
JaneSullivan-NOAA/M2_features_design
Design doc for M2 more features subgroup
JaneSullivan-NOAA/Model_Comparison_Paper
FIMS first test case with sigmaR = 0
JaneSullivan-NOAA/ofi2023_growth
JaneSullivan-NOAA/pkgdown
Generate static html documentation for an R package
JaneSullivan-NOAA/rema_examples
Case studies for Laurie's rema diagnostics project
JaneSullivan-NOAA/rockfishM
Update to rockfish natural mortality for rougheye, blackspotted rockfish, shortraker, shortspine thornyhead, and 'other rockfish' stocks in the GOA and BSAI
JaneSullivan-NOAA/rw_maturity
Logistic age-based maturity model with time-varying a50 and slope parameters that are estimated as random effects and modeling using a random walk process..
JaneSullivan-NOAA/saa
Test modular RTMB-based library
JaneSullivan-NOAA/separable_function
test behavior of the separable_function in admb
JaneSullivan-NOAA/sharpchin_rema_example
Fit the random effects model to GOA sharpchin rockfish survey data using the rema R library.
JaneSullivan-NOAA/slinky
Experimental slinky pot gear research
JaneSullivan-NOAA/sop
JaneSullivan-NOAA/sst_playground
A fun place to practice the Stock Synthesis model development framework developed by @MatthVeron
JaneSullivan-NOAA/wham
State-space, age-structured fish stock assessment model