MSA

Map of study area

Installation

Install the "remotes" package from CRAN:

 install.packages("remotes")
 library("remotes")

Please install the MSA package from this GitHub repository using a function in the "remotes" package:

remotes::install_github("Bai-Li-2018/MSA", dependencies = TRUE)
library(MSA)

Example

Please confirm that MSA is installed by running the simple example below. Please install and library mapdata package if you get an error (e.g., 'worldHiresMapEnv' is not an exported object from 'namespace:maps') when map_sp_path=NULL.

## Plot a map of study area with sampling grids
plot_map_grid(map_sp_path = system.file("extdata", "shapefiles", "ME_clip_NAD83.shp", package="MSA"),
              grids_sp_path = system.file("extdata", "shapefiles", "grids2007.shp", package="MSA"),
              xlim=c(-70.8, -67), 
              ylim=c(42.5, 44.8),
              grids_col_var="DEPTH_S",
              grids_col=rainbow(4),
              legend_x = -69, legend_y=43.5,
              legend=c("[5-20]", "[21-35]", "[36-55]", ">56"),
              legend_title = "Depth Strata (Fathom)")

## Add lines to show regions
add_sp(sp_path=system.file("extdata", "shapefiles", "trawl_survey_regions.shp", package="MSA"),
       col="black", border_col="black")

## Add sampling stations
stations <- read.csv(system.file("extdata", "stations.csv", package="MSA"))
add_stations(stations_x=stations$START_LONGITUDE, 
             stations_y=stations$START_LATITUDE, 
             col="black", points_cex=0.3)

Acknowledgements

• All the shapefiles and coordinates of stations are stored in inst/extdata folder.
• ME_clip_NAD83 files are provided by Dr. Jie Cao
• grids2007 and trawl_survey_regions are provided by Maine Department of Marine Resources (Maine DMR)
• stations.csv contains randomly selected stations from Maine DMR Bottom Trawl Survey