Jadera: Shape data from _Jadera haematoloma_
In aphanotus/borealis: Tools for reproducible geometric morphometric analysis

Jadera

R Documentation

Shape data from Jadera haematoloma

Description

Coordinate shape data from the dorsal side of red-shouldered soapberry bugs, Jadera haematoloma.

Usage

Jadera

Format

An object of class list of length 6.

Details

coords: An array of XY coordinates for the shape of multiple specimens (42 landmarks by 2 (XY) by 189 specimens).
landmark.number: The number of landmarks in the shape data.
specimen.number: The number of specimens in the shape data.
metadata: A data frame of metadata.
provenance: Data provenance.

Metadata includes the following

id: An ID name for each specimen, which combines a unique identifer with the morph, sex and digitizer.
pop: The population of origin. SP = Silver Palm Dr, Miami, FL. KL = Key Largo, FL. LE = Leesburg, FL. AC = Aurora, CO. FR = Frederick, MD PK = Plantation Key, FL.
hostplant: The host plant bugs were collected from in the wild, or reared on in the lab. GRT = goldenrain tree, Koelreuteria sp. BV = balloon vine, Cardiospermum corindum.
seeds: The number of seeds caged with the cohort during the bug's rearing. (Only available for lab-raised bugs.)
cohort: The number of conspecifics present in the cohort during the bug's rearing. (Only available for lab-raised bugs.)
rearing: Whether the bug was caught in the wild or reared in the lab.
morph: Whether the bug was classified as long winged (LW) oir short-winged (SW).
sex: Whether the bug is female (f) or male (m).
digitizer: The initials of the person who did the landmark digitization.
bodylength: The length of the body, from clypeus to terminalia, measured from the ventral side (mm).
beak: The length of the beak (also called the rostrum or labium), from anterior of the clypeus to its distal tip (mm).
labrum: The length of the labrum, from anterior of the clypeus to its distal tip (mm).
antenna: The mean length of the antennae (mm).
femur1: The mean length of the femur of the first legs (mm).
femur2: The mean length of the femur of the second legs (mm).
femur3: The mean length of the femur of the third legs (mm).

Source

Dave Angelini david.r.angelini@gmail.com [aut, cre]

References

Fawcett, M.M., Parks, M.C., Tibbetts, A.E., Swart, J.S., Richards, E.M., Vanegas, J.C., Cenzer, M., Crowley, L., Simmons, W.R., Hou, W.S., Angelini, D.R. (2018). Manipulation of insulin signaling phenocopies evolution of a host-associated polyphenism. Nature Communications 9: 1699. https://doi.org/10.1038/s41467-018-04102-1

Examples

# Load the dataset
data("Jadera", package = "borealis")

# Define connecting lines
{
  x <- 1:9
  jhae.lines <- matrix(c(x[-length(x)], x[length(x)], x[-1], x[1]), ncol = 2)
  x <- c(10,11,17,16,15,12,13,14)
  jhae.lines <- rbind(jhae.lines, matrix(c(x[-length(x)], x[length(x)], x[-1], x[1]), ncol = 2) )
  x <- c(17,18,15,16)
  jhae.lines <- rbind(jhae.lines, matrix(c(x[-length(x)], x[length(x)], x[-1], x[1]), ncol = 2) )
  x <- c(19,21,22,20,26,25,32:34,31,35:39,29,40:42)
  jhae.lines <- rbind(jhae.lines, matrix(c(x[-length(x)], x[length(x)], x[-1], x[1]), ncol = 2) )
  x <- c(19,23, 23,24, 23,28, 28,29, 19,24, 24,27, 27,28, 19,25, 27,30)
  jhae.lines <- rbind(jhae.lines, matrix(x, ncol = 2, byrow = TRUE) )
  x <- c(1,3, 7,9, 14,16, 16,18)
  jhae.lines <- rbind(jhae.lines, matrix(x, ncol = 2, byrow = TRUE) )
}

landmark.plot(Jadera, links = jhae.lines)
landmark.plot(Jadera, links = jhae.lines, specimen.number = c(23,24,31,33))

aphanotus/borealis documentation built on Nov. 4, 2022, 8:44 p.m.