The University of Adelaide
Browse
TEXT
17spp_World_raw_coords_unbent.tps (17.11 kB)
TEXT
17spp_World_raw_coords.tps (10.98 kB)
TEXT
187spp_Australia_raw_coords_unbent.tps (176.1 kB)
TEXT
187spp_Australia_raw_coords.tps (164.37 kB)
DATASET
Curve_sliding_for_GPA.csv (0.44 kB)
TEXT
Unbend_tadpole_tail_eye.nts (0.08 kB)
1/0
6 files

Data for Ecomorphological diversity of Australian tadpoles

dataset
posted on 2018-11-12, 05:31 authored by Emma SherrattEmma Sherratt, Marion Anstis, J Scott Keogh
Landmark and semilandmark coordinate data (2-dimensional) for tadpole body shape of 187 species of Australian frogs, and 17 species of worldwide frogs. To accompany: Sherratt, Anstis and Keogh 2018 Ecomorphological diversity of Australian tadpoles, Ecology & Evolution.

File List
17spp_World_raw_coords_unbent.tps
17spp_World_raw_coords.tps
187spp_Australia_raw_coords_unbent.tps
187spp_Australia_raw_coords.tps
Curve_sliding_for_GPA.csv
Unbend_tadpole_tail_eye.nts

Details
Data are provided as raw landmark coordinates, and after unbending using the quadratic approach in tpsUtil v.1.74 (unbent using the landmarks identified in "Unbend_tadpole_tail_eye.nts"). Sliding semilandmarks can be done during generalized Procrustes superimposition using the landmarks identified in "Curve_sliding_for_GPA.csv" - for use with R package geomorph.

e.g.,
library(geomorph)
# Read in data
tadpoles <- readland.tps("187spp_Australia_raw_coords_unbent.tps", specID = "ID")
# PAUSE: Negative landmark coordinates have been identified. Should they be considered as NAs? (y/n) n
# Perform GPA with minimising bending energy
curve.sliding <- as.matrix(read.csv("Curve_sliding_for_GPA.csv", header=TRUE))
tad.gpa <- gpagen(tadpoles, curves=curve.sliding, ProcD=F)

Landmarks and semilandmarks defined as: 1, centre of the eye; 2, centre of the external nares; 3, point where the upper labium contacts the head/body in lateral view; 4, point where the lower labium contacts the head/body in lateral view; 5, intersection of the head/body and tail on the ventral side, anterior to the vent; 6, intersection of the ventral edge if the tail muscle and the head/body; 7, intersection of the dorsal edge if the tail muscle and the head/body; 8, tip of the tail; 9, point on the dorsal fin closest to landmark 7 (superficially denotes the intersection of the head/body and tail regions); 10–17, equally-spaced semilandmarks marking the curve of the dorsal aspect of the head/body when viewed laterally; 18–27, equally-spaced semilandmarks marking the curve of the dorsal aspect of the tail fin when viewed laterally; 28–37, equally-spaced semilandmarks marking the curve of the ventral aspect of the tail fin when viewed laterally; 38–45, equally-spaced semilandmarks marking the curve of the ventral aspect of the head/body when viewed laterally; 46–55, equally-spaced semilandmarks marking the curve of the notochord. Landmark configuration has been straightened from the eye to the tip of the tail along the notochord in order to standardise all specimens’ configurations (see Methods for details).

Funding

ARC DP150102403

The University of Adelaide Research Fellowship

History