Package: scaleboot 1.0-1
scaleboot: Approximately Unbiased P-Values via Multiscale Bootstrap
Calculating approximately unbiased (AU) p-values from multiscale bootstrap probabilities. See Shimodaira (2004) <doi:10.1214/009053604000000823>, Shimodaira (2008) <doi:10.1016/j.jspi.2007.04.001>, Terada ans Shimodaira (2017) <arxiv:1711.00949>, and Shimodaira and Terada (2019) <doi.org/10.3389/fevo.2019.00174>.
Authors:
scaleboot_1.0-1.tar.gz
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scaleboot.pdf |scaleboot.html✨
scaleboot/json (API)
# Install 'scaleboot' in R: |
install.packages('scaleboot', repos = c('https://shimosan.r-universe.dev', 'https://cloud.r-project.org')) |
- lung.pvclust - Clustering of 73 Lung Tumors
- lung.sb - Clustering of 73 Lung Tumors
- lung73.pvclust - Clustering of 73 Lung Tumors
- lung73.sb - Clustering of 73 Lung Tumors
- mam105.ass - Mammal Phylogenetic Analysis for 15 trees
- mam105.aux - Mammal Phylogenetic Analysis for 15 trees
- mam105.mt - Mammal Phylogenetic Analysis for 15 trees
- mam105.relltest - Mammal Phylogenetic Analysis for 15 trees
- mam15.ass - Mammal Phylogenetic Analysis for 15 trees
- mam15.aux - Mammal Phylogenetic Analysis for 15 trees
- mam15.mt - Mammal Phylogenetic Analysis for 15 trees
- mam15.relltest - Mammal Phylogenetic Analysis for 15 trees
- mam26.ass - Mammal Phylogenetic Analysis for 15 trees
- mam26.aux - Mammal Phylogenetic Analysis for 15 trees
- mam26.mt - Mammal Phylogenetic Analysis for 15 trees
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 5 years agofrom:c0e40bf17c. Checks:OK: 1 NOTE: 6. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Nov 15 2024 |
R-4.5-win | NOTE | Nov 15 2024 |
R-4.5-linux | NOTE | Nov 15 2024 |
R-4.4-win | NOTE | Nov 15 2024 |
R-4.4-mac | NOTE | Nov 15 2024 |
R-4.3-win | NOTE | Nov 15 2024 |
R-4.3-mac | NOTE | Nov 15 2024 |
Exports:countw.assmaxcountw.shtestcountw.shtestassplot.scalebootplot.scalebootvread.assread.cntread.mtrelltestsbaicsbaic<-sbconfsbfitsblegendsbmodelnamessboptionssbphylosbplotbetasbpsi.genericsbpsi.polysbpsi.singsbpsi.sphesbpvalsbpvclustscaleboot
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Approximately Unbiased P-values via Multiscale Bootstrap | scaleboot-package |
Extract Model Coefficients | coef.scaleboot coef.scalebootv |
Interface to External Packages | interface.scaleboot read.ass read.cnt read.mt sbfit.pvclust sbpvclust |
Clustering of 73 Lung Tumors | lung.pvclust lung.sb lung73 lung73.pvclust lung73.sb |
Mammal Phylogenetic Analysis for 15 trees | mam105 mam105.ass mam105.aux mam105.mt mam105.relltest mam15 mam15.ass mam15.aux mam15.mt mam15.relltest mam26 mam26.ass mam26.aux mam26.mt |
Plot Diagnostics for Multiscale Bootstrap | lines.scaleboot plot.scaleboot plot.scalebootv plot.summary.scaleboot plot.summary.scalebootv sblegend sbplotbeta |
RELL Test for Phylogenetic Inference | relltest summary.relltest |
Akaike's Information Criterion | sbaic sbaic.scaleboot sbaic.scalebootv sbaic<- sbaic<-.scaleboot sbaic<-.scalebootv |
Bootstrap Confidence Intervals | plot.sbconf print.sbconf sbconf sbconf.default sbconf.sbconf |
Fitting Models to Bootstrap Probabilities | print.scaleboot print.scalebootv sbfit sbfit.data.frame sbfit.default sbfit.matrix sbfit.scaleboot sbfit.scalebootv |
Options for Multiscale Bootstrap | sboptions |
Tables for phylogenetic inference | print.sbphylo print.summary.sbphylo sbphylo summary.sbphylo |
Model Specification Functions | sbmodelnames sbpsi sbpsi.generic sbpsi.poly sbpsi.sing sbpsi.sphe |
Extract P-values | sbpval sbpval.summary.scaleboot sbpval.summary.scalebootv |
Multiscale Bootstrap Resampling | countw.assmax countw.shtest countw.shtestass scaleboot |
P-value Calculation for Multiscale Bootstrap | print.summary.scaleboot print.summary.scalebootv summary.scaleboot summary.scalebootv |