Package: fastreeR 2.3.0

Anestis Gkanogiannis

fastreeR: Phylogenetic, Distance and Other Calculations on VCF and Fasta Files

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.

Authors:Anestis Gkanogiannis [aut, cre]

fastreeR_2.3.0.tar.gz
fastreeR_2.3.0.zip(r-4.7)fastreeR_2.3.0.zip(r-4.6)fastreeR_2.3.0.zip(r-4.5)
fastreeR_2.3.0.tgz(r-4.6-any)fastreeR_2.3.0.tgz(r-4.5-any)
fastreeR_2.3.0.tar.gz(r-4.7-any)fastreeR_2.3.0.tar.gz(r-4.6-any)
fastreeR_2.3.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
fastreeR/json (API)
NEWS

# Install 'fastreeR' in R:
install.packages('fastreeR', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/gkanogiannis/fastreer/issues

Uses libs:
  • openjdk– OpenJDK Java runtime, using Hotspot JIT

On BioConductor:fastreeR-2.3.0(bioc 3.24)fastreeR-2.2.0(bioc 3.23)

phylogeneticsmetagenomicsclusteringopenjdk

6.94 score 31 stars 28 scripts 353 downloads 8 exports 19 dependencies

Last updated from:a85f8f11a4. Checks:1 WARNING, 9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksWARNING149
linux-devel-x86_64OK219
source / vignettesOK334
linux-release-x86_64OK213
macos-release-arm64OK105
macos-oldrel-arm64OK102
windows-develOK128
windows-releaseOK110
windows-oldrelOK87
wasm-releaseOK135

Exports:dist2clustersdist2treefasta2disttree2clustersvcf2clustersvcf2distvcf2istatsvcf2tree

Dependencies:apeclidata.tabledigestdynamicTreeCutgluelatticelifecyclemagrittrnlmeR.methodsS3R.ooR.utilsRcpprJavarlangstringistringrvctrs

fastreeR Vignette

Anestis Gkanogiannis

Rendered fromfastreeR_vignette.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2026-04-24
Started: 2022-03-19