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nodeSub
View on CRAN: Click
here
Download and install nodeSub package within the R console
Install from CRAN:
install.packages("nodeSub")
Install from Github:
library("remotes")
install_github("cran/nodeSub")
Install by package version:
library("remotes")
install_version("nodeSub", "1.2.8")
Attach the package and use:
library("nodeSub")
Maintained by
Thijs Janzen
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
10.32614/CRAN.package.nodeSub . https://github.com/thijsjanzen/nodeSub . https://github.com/thijsjanzen/nodeSub . nodeSub results . nodeSub.pdf . nodeSub_1.2.8.tar.gz . nodeSub_1.2.8.zip . nodeSub_1.2.8.zip . nodeSub_1.2.8.zip . nodeSub_1.2.8.tgz . nodeSub_1.2.8.tgz . nodeSub_1.2.8.tgz . nodeSub_1.2.8.tgz . nodeSub archive . https://CRAN.R-project.org/package=nodeSub .
First Published: 2021-09-30
Latest Update: 2023-11-14
Description:
Simulate DNA sequences for the node substitution model.
In the node substitution model, substitutions accumulate additionally
during a speciation event, providing a potential mechanistic explanation for
substitution rate variation. This package provides tools to simulate
such a process, simulate a reference process with only substitutions along
the branches, and provides tools to infer phylogenies from alignments. More
information can be found in Janzen (2021) .
How to cite:
Thijs Janzen (2021). nodeSub: Simulate DNA Alignments Using Node Substitutions. R package version 1.2.8, https://cran.r-project.org/web/packages/nodeSub. Accessed 29 Apr. 2025.
Previous versions and publish date:
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imports, suggests or enhances
Complete documentation for nodeSub
Functions, R codes and Examples using
the nodeSub R package
Some associated functions: calc_expected_hidden_nodes . calc_fraction . calc_required_node_time . calc_sum_stats . count_hidden . create_balanced_tree . create_equal_alignment . create_equal_alignment_explicit . create_unbalanced_tree . estimate_marginal_models . get_p_matrix . infer_phylogeny . nodeSub-package . reduce_tree . sim_linked . sim_normal . sim_normal_explicit . sim_unlinked . sim_unlinked_explicit . slow_matrix .
Some associated R codes: RcppExports.R . calc_rel_contr_node_time.R . calc_summary_statistics.R . count_hidden.R . create_equal_alignment.R . create_equal_alignment_explicit.R . create_tree_from_brts.R . estimate_marginal_models.R . infer_phylogeny.R . nodeSub.R . sim_linked.R . sim_normal.R . sim_normal_explicit.R . sim_unlinked.R . sim_unlinked_explicit.R . util.R . Full nodeSub package functions and examples
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