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fastreeR

This is the released version of fastreeR; for the devel version, see fastreeR.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15

Phylogenetic, Distance and Other Calculations on VCF and Fasta Files

DOI: 10.18129/B9.bioc.fastreeR

Bioconductor version: Release (3.23)

Calculate distances, build phylogenetic trees or perform hierarchical clustering between the samples of a VCF or FASTA file. Functions are implemented in Java-11 and called via rJava. Parallel implementation that operates directly on the VCF or FASTA file for fast execution.

Author: Anestis Gkanogiannis [aut, cre] ORCID: 0000-0002-6441-0688

Maintainer: Anestis Gkanogiannis <anestis at gkanogiannis.com>

Citation (from within R, enter citation("fastreeR")):

Anestis Gkanogiannis. fastreeR: Phylogenetic, Distance and Other Calculations on VCF and Fasta Files. doi:10.18129/B9.bioc.fastreeR, R package version 2.2.0, https://bioconductor.org/packages/fastreeR.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("fastreeR")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("fastreeR")

Details

Package Archives

Follow Installation instructions to use this package in your R session.