Category Archives: Fisheries Science

Posts that are related to the analysis of typical fisheries science data (e.g., growth, mortality, abundance).

Changes to Von B Growth Modeling in FSA

In previous versions of FSA, growthModelSim() was used to produce a scatterplot of length-age data with a von Bertalanffy model superimposed where the parameters of the model were linked to slider bars that allowed the model to be dynamically changed … Continue reading

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Mortality & Age Comparisons Chapters

Thanks to some very thoughtful reviews, I have dramatically updated the Mortality and Age Comparisons chapters in the Introduction to Fisheries Analysis with R book. Changes to the Age Comparisons chapter in particular resulted in major changes to the FSA … Continue reading

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Weight-Length & Condition Chapters Updated

Thanks to a couple of great reviews, I have updated the Weight-Length and Condition chapters of the forthcoming Introduction to Fisheries Analysis with R book. The suggestions resulted in some changes to the FSA package so you may want to … Continue reading

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Plotting Fundamentals Chapter

I have uploaded a draft of Chapter 3 — Plotting Fundamentals — for the Introduction to Fisheries Analyses with R (IFAR) book (note the new name).  This chapter is meant to be a quick introduction to plotting in base R for plots … Continue reading

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Two New Cumulative Sum Functions

In this document on RPubs, I describe two functions in FSA for computing cumulative sums.  The first is pcumsum() for computing the cumulative sum NOT including the current value and the second is rcumsum() for computing the “reverse” cumulative sum.

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Efficiently Adding Gabelhouse Lengths and Relative Weights to a data.frame (using dplyr)

In this post on RPubs, I demonstrate how to use new functions (psdAdd() and wrAdd()) in the FSA package, along with functions in the dplyr package, to efficiently add Gabelhouse length category and relative weight variables for all species in … Continue reading

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Changes to FSA — Size Structure

I have added a (very rough) first draft to the Size Structure chapter of the forthcoming Introductory Fisheries Science with R book on the book’s fishR webpage.  Accompanying this chapter are major changes to all of the proportional size distribution … Continue reading

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Age-Length Keys in FSA

I have updated the age-length key related functions in FSA and the age-length key vignette.  The details are below.   Let me know if you have questions or suggestions. FSA Changes All code that used ageKey(), ageKeyPrep(), and ageKeyPlot() should … Continue reading

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Changes to FSA — Estimating Abundance

I mentioned previously, that I have been updating the Mark-Recapture vignettes.  That has morphed into a document that is an update of the Mark-Recapture Closed and Open vignettes and the depletion/removal vignettes and associated FSA functions.  Some of the changes … Continue reading

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Modified lencat() — Increased Flexibility with dplyr

One of the first functions in the FSA package was lencat(), which served me well over the years. However, I have been bothered by the use of a formula and data= to identify a single column to be “transformed” and … Continue reading

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