Package: st 1.2.7

Korbinian Strimmer

st: Shrinkage t Statistic and Correlation-Adjusted t-Score

Implements the "shrinkage t" statistic introduced in Opgen-Rhein and Strimmer (2007) <doi:10.2202/1544-6115.1252> and a shrinkage estimate of the "correlation-adjusted t-score" (CAT score) described in Zuber and Strimmer (2009) <doi:10.1093/bioinformatics/btp460>. It also offers a convenient interface to a number of other regularized t-statistics commonly employed in high-dimensional case-control studies.

Authors:Rainer Opgen-Rhein, Verena Zuber, and Korbinian Strimmer.

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NEWS

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

Peer review:

Bug tracker:https://github.com/strimmerlab/software/issues

Datasets:
  • choe2.L - A Subset of the Choe et al. (2005) "Golden Spike" Experiment
  • choe2.degenes - A Subset of the Choe et al. (2005) "Golden Spike" Experiment
  • choe2.mapping - A Subset of the Choe et al. (2005) "Golden Spike" Experiment
  • choe2.mat - A Subset of the Choe et al. (2005) "Golden Spike" Experiment
  • choe2.probe.name - A Subset of the Choe et al. (2005) "Golden Spike" Experiment
  • choe2.symbol.name - A Subset of the Choe et al. (2005) "Golden Spike" Experiment

23 exports 2.18 score 4 dependencies 1 dependents 9 mentions 57 scripts 898 downloads

Last updated 3 years agofrom:f1bfd26b07. Checks:OK: 2. Indexed: yes.

TargetResultDate
Doc / VignettesOKSep 14 2024
R-4.5-linuxOKSep 14 2024

Exports:cst.funcst.statdiffmean.fundiffmean.statefront.funefront.statlai.tscorelait.funlait.statmodt.funmodt.statrankprod.funrankprod.statsam.funsam.statsamL1.funsamL1.statshrinkcat.funshrinkcat.statshrinkt.funshrinkt.statstudentt.funstudentt.stat

Dependencies:corpcorentropyfdrtoolsda

Readme and manuals

Help Manual

Help pageTopics
The st packagest-package
A Subset of the Choe et al. (2005) ``Golden Spike'' Experimentchoe2.degenes choe2.L choe2.mapping choe2.mat choe2.probe.name choe2.symbol.name
Correlation-Shared t-Statisticcst.fun cst.stat
Difference of Means (``Fold Change'') and Rank Products Statisticdiffmean.fun diffmean.stat rankprod.fun rankprod.stat
Correlation-Predicted t-Statisticlai.tscore lait.fun lait.stat
Various (Regularized) t Statisticsefront.fun efront.stat modt.fun modt.stat sam.fun sam.stat samL1.fun samL1.stat
Correlation-Adjusted t Score (CAT score)shrinkcat.fun shrinkcat.stat
The Shrinkage t Statisticshrinkt.fun shrinkt.stat
(Paired) Student t Statisticstudentt.fun studentt.stat