Package: SigTree 1.10.6

SigTree: Identify and Visualize Significantly Responsive Branches in a Phylogenetic Tree

Provides tools to identify and visualize branches in a phylogenetic tree that are significantly responsive to some intervention, taking as primary inputs a phylogenetic tree (of class phylo) and a data frame (or matrix) of corresponding tip (OTU) labels and p-values.

Authors:John R. Stevens and Todd R. Jones

SigTree_1.10.6.tar.gz
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SigTree.pdf |SigTree.html✨
SigTree/json (API)
NEWS

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

Peer review:

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

2.30 score 3 scripts 192 downloads 2 mentions 24 exports 88 dependencies

Last updated 7 years agofrom:e1f03b0075. Checks:OK: 1 WARNING: 4 NOTE: 4. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 03 2024
R-4.5-win-x86_64NOTENov 03 2024
R-4.5-linux-x86_64WARNINGNov 03 2024
R-4.4-win-x86_64NOTENov 03 2024
R-4.4-mac-x86_64NOTENov 03 2024
R-4.4-mac-aarch64NOTENov 03 2024
R-4.3-win-x86_64WARNINGNov 03 2024
R-4.3-mac-x86_64WARNINGNov 03 2024
R-4.3-mac-aarch64WARNINGNov 03 2024

Exports:adonis.treecircularplot2edge.colorsexport.figtreeexport.inheritfishershartungindex.matrixnode_depth_edgelengthSigTreenode_depthSigTreenode_height_cladoSigTreenode_heightSigTreenum.edgesnum.internal.nodesnum.tipsnum.total.nodesp.p2.ADJ.p1p2.p1plotphylo2plotSigTreeresultsrt.pvaluesstoufferstip.colors

Dependencies:ade4apeaskpassBiobaseBiocGenericsbiomformatBiostringscliclustercodetoolscolorspacecpp11crayoncurldata.tabledigestdplyrfansifarverforeachgenericsGenomeInfoDbGenomeInfoDbDataggplot2gluegtablehmshttrigraphIRangesisobanditeratorsjsonlitelabelinglatticelifecyclemagrittrMASSMatrixmgcvmimemulttestmunsellnlmeopensslpermutephyext2phylobasephyloseqpillarpixmappkgconfigplyrprettyunitsprogresspurrrR6RColorBrewerRcppRcppArmadilloreshape2rhdf5rhdf5filtersRhdf5librlangrnclRNeXMLS4VectorsscalesspstringistringrsurvivalsystibbletidyrtidyselectUCSC.utilsutf8uuidvctrsveganviridisLitewithrXMLxml2XVectorzlibbioc

SigTree Tutorial Vignette

Rendered fromSigTree.Rnwusingutils::Sweaveon Nov 03 2024.

Last update: 2017-10-02
Started: 2013-12-28