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| ARTIVA-package | Time-Varying DBN Inference with the ARTIVA (Auto Regressive TIme VArying) Model |
| ARTIVA | Time-Varying DBN Inference with the ARTIVA (Auto Regressive TIme VArying) Model |
| ARTIVAnet | Function to run the ARTIVA procedure for Auto Regressive TIme-VArying network inference on several target genes |
| ARTIVAsubnet | Function to recover Auto Regressive TIme-VArying interactions between a gene of interest (referred to as "target gene") and a set of genes which may explain the expression of the target gene. |
| ARTIVAsubnetAnalysis | Function to estimate a regulatory time-varying network from the output of function ARTIVAsubnet. |
| bdu | Internal ARTIVA Functions |
| buildXY | Internal ARTIVA Functions |
| choosePriors | Function to plot an overview of possible priors for the number of changepoints and/or edges. |
| computePx | Internal ARTIVA Functions |
| computeRho3 | Internal ARTIVA Functions |
| computeRho4 | Internal ARTIVA Functions |
| cp.birth | Internal ARTIVA Functions |
| cp.computeAlpha | Internal ARTIVA Functions |
| cp.death | Internal ARTIVA Functions |
| CP.postDist | Function to compute the CPs posterior distribution for the ARTIVA network model from the the ouput samples of function ARTIVAsubnet. |
| cp.shift | Internal ARTIVA Functions |
| CPposition | Internal ARTIVA Functions |
| dinvgamma | Internal ARTIVA Functions |
| drosophila | Drosphila life cycyle time series by Arbeitman et al 2002. |
| fast.svd | Internal ARTIVA Functions |
| geneNetworkSummary | Function to |
| hasSeg | Internal ARTIVA Functions |
| init | Internal ARTIVA Functions |
| main | Internal ARTIVA Functions |
| nsmall.svd | Internal ARTIVA Functions |
| plotCP.postDist | Function to plot the estimated posterior distribution for the changepoints (CPs) number and position |
| PlotFunction | Internal ARTIVA Functions |
| plotSegmentModel.postDist | Internal ARTIVA Functions |
| positive.svd | Internal ARTIVA Functions |
| priors | Set of possible priors for the number of changepoints (CPs) or incoming edges. |
| pseudoinverse | Internal ARTIVA Functions |
| psmall.svd | Internal ARTIVA Functions |
| PSRF | Internal ARTIVA Functions |
| readDataTS | Internal ARTIVA Functions |
| readInput | Internal ARTIVA Functions |
| rinvgamma | Internal ARTIVA Functions |
| sampleBinit | Internal ARTIVA Functions |
| sampleBxy | Internal ARTIVA Functions |
| sampleDelta2 | Internal ARTIVA Functions |
| sampleK | Internal ARTIVA Functions |
| sampleParms | Internal ARTIVA Functions |
| sampleSig2 | Internal ARTIVA Functions |
| segment.update | Internal ARTIVA Functions |
| segmentModel.postDist | Internal ARTIVA Functions |
| segPos | Internal ARTIVA Functions |
| simulatedProfiles | Simulated gene expression profiles dataset. |
| traceGeneProfiles | Function to plot the gene expression profiles |
| traceNetworks | Function to plot the network estimated with functions ARTIVAnet or ARTIVAsubnet |
| updateSigMulti | Internal ARTIVA Functions |
| yeast | Yeast stress response data |