In Tatianabellagio/buttRflyfish: What the Package Does (One Line, Title Case)

knitr::opts_chunk$set(
  collapse = TRUE,
  warning = FALSE,
  message = FALSE,
  echo = FALSE,
  comment = "#>",
  fig.path = "../figures/",
  dpi = 300
)

Introduction

Here, we reproduce figure 2b from [@nowicki2020] - "Gene expression correlates of social evolution in coral reef butterfly fishes". This study analyzed the neural correlates of pair-bonding vs. solitary mating behavior in several species of Chaetodontidae fishes. To accomplish this, they compared gene expression of socially-relevant neuropeptides in brain regions pertinent to social function. One of their main findings was that the males of pair-bonding species had elevated oxytocin receptor (OTR) expression in the supracommissural part of the ventral telencephalon (Vs) compared to the males of solitary species.

Methods

The authors of [@nowicki2020] used qRT-PCR to quantify relative mRNA expression of OTR in Vs of 5 Chaetodontidae species: C. vagabundus, C. lunatus, C. baronessa, C. trifascialis, and C. rainfordi. They employ a Markov Chain Monte Carlo approach to analyze differential gene expression. Below is a reproduction of figure 2b using our package buttRflyfish.

Results

library(buttRflyfish)

data = load_data() # load data
model = run_model(data) # run MCMC model
p = otr_expression_plot(model,data) # plot differential expression results

References

::: {#refs} :::

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Colophon

This report was generated on r Sys.time() using the following computational environment and dependencies:

# which R packages and versions?
if ("devtools" %in% installed.packages()) devtools::session_info()

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# what commit is this file at? 
if ("git2r" %in% installed.packages() & git2r::in_repository(path = ".")) git2r::repository(here::here())  

Tatianabellagio/buttRflyfish documentation built on Dec. 18, 2021, 4:05 p.m.