sample.map: Plot The Geographic Location of Samples

In RAM: R for Amplicon-Sequencing-Based Microbial-Ecology

Description

This function plot the number of samples collected from different locations that are DISTANT from each other, e.g. samples that collected from distant cities. This function is similar but not the same as sample.locations and sample.sites. The plot will also show the sample size of each location.

Usage

sample.map(meta, siteID="City", maptype="roadmap",
           shape=16, colour=c("red", "blue"),
           lat="Latitude", lon="Longitude", zoom=3,
           file=NULL, ext=NULL, width=10, height=10)

Arguments

meta	the OTU table to be used.
siteID	IDs of sampling sites for each unique pair of longitude and latitude.
maptype	maptype to use, see also get_map.
shape	shape to be used, default is 16 (solid round dot).
colour	smooth gradient between two colours, default is c("red", "blue")
lat	latitude of each sampling location
lon	longitude of each sampling location
zoom	map zoom, an integer from 3 (continent) to 21 (building). see also get_map.
file	the file path where the image should be created (see ?RAM.plotting).
ext	the file type to be used; one of "pdf", "png", "tiff", "bmp", "jpg", or "svg".
height	the height of the image to be created (in inches).
width	the width of the image to be created (in inches).

Details

Please note that this function is getting map information using either the Google Maps API or the OpenStreetMap API, and your usage is subject to the terms of those APIs.

Note

If you are getting a 403/503 error, that likely means that the current map provider is currently unavailable. Try calling the function again in a few hours. If you get a warning message of the form "Removed X rows containing missing values (geom_point).", this means that the current zoom level is too high to display some or all of the points. Try using a lower value forzoom.

Author(s)

Wen Chen.

See Also

sample.locations, sample.sites

Examples

data(meta)
## Not run: 
sample.map(meta=meta, zoom=8)

## End(Not run)

RAM documentation built on May 2, 2019, 3:04 p.m.