pd2: Faith's PD
In daijiang/lirrr: Functions collected/wrote by Daijiang Li
pd2 R Documentation
Faith's PD
Description
Calculate faith's pd, this is a wrapper of 'phylocomr::ph_pd' and 'picante::pd'.
Usage
pd2(comm, tree, include.root = TRUE, comm_long)
Arguments
comm
A site by species data frame, site names as row names, only works for presence/absence data.
tree
A phylogeny of class "phylo".
include.root
Whether include root in picante::pd; phylocomr::ph_pd always include root.
comm_long
Long format of comm, 3-columns: site, freq, sp; optional.
Value
A data frame of PD for each site.
daijiang/lirrr documentation built on Feb. 3, 2024, 5:42 p.m.
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| pd2 | R Documentation |
Faith's PD
Description
Calculate faith's pd, this is a wrapper of 'phylocomr::ph_pd' and 'picante::pd'.
Usage
pd2(comm, tree, include.root = TRUE, comm_long)
Arguments
comm |
A site by species data frame, site names as row names, only works for presence/absence data. |
tree |
A phylogeny of class "phylo". |
include.root |
Whether include root in picante::pd; phylocomr::ph_pd always include root. |
comm_long |
Long format of comm, 3-columns: site, freq, sp; optional. |
Value
A data frame of PD for each site.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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