Statistics & Probability > MATHS> JBI> FWN> RUG

Statistical software

  • R packages
    • odest_1.1.tar.gz, odest_1.1.zip: ODE estimation via RKHS, R-package that estimates parameters of Ordinary Differential Equations measured with noise by using Reproducing Kernel Hilbert Space (RKHS) approach.
    • dglars package: R-package for the paper entitiled: "Differential geometric least angle regression: a differential geometric approach to sparse generalized linear models", A. Augugliaro, A. Mineo and E. Wit.
    • gdglars_1.0.tar.gz: gdgLARS, R-package that calculates a sparse solution path for a Generalized Linear Model with grouped predictors.
    • neat package: R package associated to the publication: Signorelli, M., Vinciotti, V., Wit, E. C. (2016). "NEAT: an efficient network enrichment analysis test". BMC Bioinformatics, 17:352.
    • CopulaGGM_1.0.zip: Sparse Gaussian Copula Graphical Models , R-package that calculates a sparse precision matrix for network construction of mixed variables.
    • gcgmmd_1.0.tar.gz: gcgmmd ', R package for sparse Gaussian Copula Graphical Models for mixed variables.
    • gcgm_1.0.zip: Gaussian Copula Graphical Models (GCGM) for mixed variables , R-package that calculates penalized non-gaussian and/or discrete graphical models.
    • BDgraph package: R-package for the paper entitiled: "Gaussian graphical model determination based on birth-death MCMC inference", A. Mohammadi and E. Wit.
    • CGsparse_1.0.zip: Biostatistics, 2013, Sparse time series chain graphical models for reconstructing genetic networks , Abegaz and Wit. R-package that calculates sparse autoregressive coefficients and precision matrices.
    • R3.0 smida_1.0.tar.gz smida_1.1.zip; R2.15 smida_1.0.tar.gz smida_1.0.zip; : Statistics for Microarrays. All the statistical techniques and data described in Statistics for Microarrays have been implemented in the R library smida (under a GNU licence).
  • Data
  • R code associated with publications
  • 2012
    • R-code.zip: for the paper entitled: "Using mixture of Gamma distributions for Bayesian analysis in an M/G/1 queue with optional second service", A. Mohammadi, M. Salehi-Rad, E. Wit.
    • R code (ZIP format) for the paper entitled: "Reproducing kernel Hilbert space based estimation of systems of ordinary differential equations", Gonzalez, Vujacic and Wit.
    • R code (ZIP format) for the paper entitled: "A new statistical framework to infer gene regulatory networks with hidden transcription factors", Gonzalez, Vujacic and Wit.
    • R-Code.zip: for the paper entitled: "State-space modeling of dynamic genetic networks", A.Lotsi, and E.Wit.
    • R-Code.zip: for the paper entitled: "Network estimation in State Space Model with L1-regularization constraint", A.Lotsi, and E.Wit.
    • R-Code.zip, Data.zip: "Probability genotype imputation method and integrated weighted adaptive lasso for QTL identification." Demetrashvili N., Van den Heuvel E.R. and Wit E.C.
    • FriendshipData.txt: Data belonging to "Is it chaos? No just a mess!", FMF Almanak 2012. Consists of 30 opinion polls scores (normalized) measured on 8 individuals.