Statistics and Computational Biology
Software:
On this page you find open-source programs developed in our group
that implement various of our methods and algorithms.
R Packages:
All of our R packages have been deposited on
CRAN, so that you
can install them easily from within R.
- corpcor:
Efficient estimation of covariance and (partial) correlation.
- entropy:
Entropy and mutual information estimation.
- fdrtool:
Estimation and control of (local) false discovery rates.
- GeneNet:
Modeling and inferring gene networks.
- longitudinal:
Analysis of multiple time course data.
- sda:
Shrinkage discriminant analysis and feature selection.
- st: Shrinkage
t statistic and correlation-adjusted t score.
- ape:
Analyses of phylogenetics and evolution
(Maintainer: E. Paradis)
- GeneCycle:
Identification of periodically expressed genes
(Maintainer: M. Ahdesmäki).
- plsgenomics:
PLS analyses for genomics
(Maintainer: A. Boulesteix).
Other R Code:
Matlab/Octave Code:
Miscellaneous:
- TREE-PUZZLE:
Maximum-likelihood tree reconstruction package.
- PAL: Java
library for methods in molecular sequence analysis.
- Vanilla: Java command
line programs based on PAL.
Last modified:
December 13, 2008