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.

st_1.2.7.tar.gz
st_1.2.7.tar.gz(r-4.5-noble)st_1.2.7.tar.gz(r-4.4-noble)
st_1.2.7.tgz(r-4.4-emscripten)st_1.2.7.tgz(r-4.3-emscripten)
st.pdf |st.html✨
st/json (API)
NEWS

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

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

On CRAN:

Conda:

2.43 score 1 packages 873 downloads 9 mentions 23 exports 4 dependencies

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

TargetResultLatest binary
Doc / VignettesOKMar 13 2025
R-4.5-linuxOKMar 13 2025
R-4.4-linuxOKMar 13 2025

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

Citation

To cite package ‘st’ in publications use:

Opgen-Rhein R, Zuber V, Strimmer. K (2021). st: Shrinkage t Statistic and Correlation-Adjusted t-Score. R package version 1.2.7, https://CRAN.R-project.org/package=st.

ATTENTION: This citation information has been auto-generated from the package DESCRIPTION file and may need manual editing, see ‘help("citation")’.

Corresponding BibTeX entry: 

  @Manual{,
    title = {st: Shrinkage t Statistic and Correlation-Adjusted
      t-Score},
    author = {Rainer Opgen-Rhein and Verena Zuber and Korbinian
      Strimmer.},
    year = {2021},
    note = {R package version 1.2.7},
    url = {https://CRAN.R-project.org/package=st},
  }

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