forked from marlonecobos/nichevol
-
Notifications
You must be signed in to change notification settings - Fork 1
/
DESCRIPTION
57 lines (57 loc) · 2.35 KB
/
DESCRIPTION
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
Package: nichevol
Type: Package
Title: Assessment of Species’ Ecological Niche Evolution Considering Uncertainty in Reconstructions
Version: 0.1.17
Authors@R: c(
person("Marlon E.", "Cobos", email = "manubio13@gmail.com", role = c("aut","cre")),
person("Hannah L.", "Owens", email = "hannah.owens@gmail.com", role = "aut"),
person("A. Townsend", "Peterson", email = "town@ku.edu", role = "aut"))
Author: Marlon E. Cobos [aut, cre],
Hannah L. Owens [aut],
A. Townsend Peterson [aut]
Maintainer: Marlon E. Cobos <manubio13@gmail.com>
Date: 2019-11-19
Description: A collection of tools that allow users to perform critical steps
in the process of assessing ecological niche evolution over phylogenies, with
uncertainty incorporated explicitly in reconstructions. The method proposed
here for ancestral reconstruction of ecological niches characterizes species'
niches using a bin-based approach that incorporates uncertainty in estimations.
Compared to other existing methods, the approaches presented here reduce risk
of overestimation of amounts and rates of ecological niche evolution. The
main analyses include: initial exploration of environmental data in occurrence
records and accessible areas, preparation of data for phylogenetic analyses,
executing comparative phylogenetic analyses of ecological niches, and plotting
for interpretations. Details on the theoretical background and methods used
can be found in: Peterson et al. (1999) <doi:10.1126/science.285.5431.1265>,
Soberón and Peterson (2005) <doi:10.17161/bi.v2i0.4>,
Peterson (2011) <doi:10.1111/j.1365-2699.2010.02456.x>,
Barve et al. (2011) <doi:10.1111/ecog.02671>,
Owens et al. (2013) <doi:10.1016/j.ecolmodel.2013.04.011>, and
Saupe et al. (2018) <doi:10.1093/sysbio/syx084>.
URL: https://github.com/marlonecobos/nichevol
BugReports: https://github.com/marlonecobos/nichevol/issues
Imports:
ape (>= 5.3),
castor (>= 1.4),
concaveman (>= 1.0),
geiger (>= 2.0),
graphics (>= 3.6),
grDevices (>= 3.6),
raster (>= 2.6),
rgdal (>= 1.2),
rgeos (>= 0.5),
sf (>= 0.8),
sp (>= 1.3),
stringr (>= 1.4),
stats (>= 3.6),
utils (>= 3.6)
Suggests:
knitr(>= 1.25),
phytools (>= 0.6)
Depends:
R (>= 3.5.0)
License: GPL-3
Encoding: UTF-8
LazyData: true
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.0.0