https://github.com/pbs-assess/gfcommercial

Groundfish Commercial Biosampling Compendium
https://github.com/pbs-assess/gfcommercial

Last synced: 3 days ago
JSON representation

Groundfish Commercial Biosampling Compendium

• Host: GitHub
• URL: https://github.com/pbs-assess/gfcommercial
• Owner: pbs-assess
• License: gpl-3.0
• Created: 2022-12-01T17:37:12.000Z (about 2 years ago)
• Default Branch: main
• Last Pushed: 2024-07-12T22:23:19.000Z (6 months ago)
• Last Synced: 2024-11-10T13:28:08.809Z (2 months ago)
• Language: TeX
• Size: 798 KB
• Stars: 0
• Watchers: 13
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE.md

Awesome Lists containing this project

README

        
# gfcommercial

A review of biological samples collected from commercial groundfish fisheries in British Columbia, 1996-2022

## Overview

This commercial biosampling compendium uses an automated workflow to generate 

figure and text summaries of groundfish commercial biosampling in British 

Columbia, Canada. Figure and text summaries are then formatted as a CSAS 

Technical Report using the R package [csasdown](https://github.com/pbs-assess/csasdown). 

The content is nearing completion in July 2024.

## Dependencies

Most packages can be installed from CRAN, but some need special installation:

```{r}

# install.packages("remotes")

remotes::install_github("pbs-assess/gfdata")

remotes::install_github("pbs-assess/gfplot")

remotes::install_github("pbs-assess/csasdown")

```

## Use

All the `.Rmd` files used to create the tech report are found in the 

report/report-rmd/ folder.

The `make.R` script (found in the report/ folder) contains all the code to create 

the species specific pages. This script pulls data from the databases, creates 

the figures (and writes them to the report/report-rmd/figs/ folder), 

and generates the `05-plot-pages.Rmd` file. 

To render the report, open `index.Rmd` in RStudio and then click the knit button.

## Output

The `csasdown` package writes the tech report to the report/report-rmd/_book/ 

folder.

## Notes and Cautions

- Please note that "sample" should refer to the collection of specimens taken in a sampling event, while "specimen" should refer to an individual fish.