This is the repo for the code used in the analysis for the paper "Winter Flounder Navigate the Postsettlement Gauntlet with a Bet-Hedging Strategy" (Dolan et al. in press in Marine and Coastal Fisheries). It still needs a lot of editing. Please feel free to email me at dolan.tara.e@gmail.com if you have questions about it. Not all of the code contained in this repo made it into the final analysis for the publication
compare mortality and growth between bays, cohort assignment, CDFS
#CSV files#
- somedata3_Mar-4-2020.csv - is all the data on catch and environmental measurements, except for mattituck
- some_mt_data.csv - is the mattituck data
- lyndie_lengths.csv is the melted version of the lyndie data.
- allmeltdec2019.csv is a melted version of all bays and years.
#CatchandGrowthCurves.Rmd#
-- Catch and growth comparisons between bays and years --
Bays: Shinnecock, Moriches, Mattituck, Napeague, Cold Spring Pond, Jamaica
Years: 2010, 2011, 2015, 2016, 2017
uses somedata3_Mar-4-2020.csv, some_mt_data.csv, lyndie_lengths.csv, allmeltdec2019.csv
#CohortGrowthJune2020_Ver1.Rmd# -- Cohort assignment and catch and growth for cohorts in Mattituck 2016, Shinnecock 2016 and Shinnecock 2017 -- uses skcompiled4gams2.csv but also lyndie-lengths, mattyage4.csv and some_mt_data #Updates needed#
- we should update the file paths for exporting figures
- transfer the cohort assignment code to a gist/update current gist.
#COHORTCDFS.Rmd#
cdfs for cohorts.
- uses allscoJune30.csv
- need to make a gist of the CDF creation.
#taraCDFSBAYYEAR.Rmd#
- need to create gist of the CDF creation