rrcgr: Prunes redundant close global reference sequences for...
In thednainus/pangeaZA: Analyses and models for PANGEA data from South Africa (ZA).
View source: R/remove_redundant_cgr.R
rrcgr R Documentation
Prunes redundant close global reference sequences for subsequent
coalescent analysis.
Description
A CGR sequence is removed if it's closest
neighbor in the tree is also a CGR. Thus the closest neighborr
for each CGR must be a non-CGR sequence
Usage
rrcgr(dtr)
Arguments
dtr
A rooted phylogenetic tree of class ape::phylo or treedater. CGR lineages and *only* CGR sequencs must include the 'CGR' string in the tip label.
Examples
load( system.file( 'data/env_treedater.rda', package = 'pangea') )
rrcgr( dtr_env2 ) -> tr
thednainus/pangeaZA documentation built on May 9, 2022, 6:21 p.m.
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View source: R/remove_redundant_cgr.R
| rrcgr | R Documentation |
Prunes redundant close global reference sequences for subsequent coalescent analysis.
Description
A CGR sequence is removed if it's closest neighbor in the tree is also a CGR. Thus the closest neighborr for each CGR must be a non-CGR sequence
Usage
rrcgr(dtr)
Arguments
dtr |
A rooted phylogenetic tree of class ape::phylo or treedater. CGR lineages and *only* CGR sequencs must include the 'CGR' string in the tip label. |
Examples
load( system.file( 'data/env_treedater.rda', package = 'pangea') ) rrcgr( dtr_env2 ) -> tr
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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