Man pages for TheJacksonLaboratory/sRACIPE_dev
Systems biology tool to simulate gene regulatory circuits
| calcHeatmapSimilarity | Calculates the similarity between two gene expression data. |
| density_plot | Plot the density |
| densityPlot | Density Plot |
| genParamNames | Generate parameter names for a circuit |
| hello | Hello, World! |
| knockdownAnalysis | Perform in-silico knockdown analysis |
| loadCircuit | Load the topology from a file. |
| loadConfig | Load the sRACIPE configuration from a file. |
| load_data | Load Data (Deprecated). |
| ModelPvalue | Returns the variance array after permutations. |
| normalizeGE | Normalize the gene expression data |
| NthMin | Find nth minimum value from a vector |
| overExprAnalysis | Perform in-silico over expression analysis |
| PermutedVar | Find variance of permutations |
| plotCircuit | Plot Gene Regulatory Circuit |
| plotData | Plot sRACIPE data |
| plot_data_deterministic | Plot the simulated data |
| plot_data_knockout_all | Plot knockout data for all genes (Deprecated) |
| plot_data_knockout_single | Plot knockout Data (Deprecated) |
| plot_data_stochastic | Plot Stochastic Data (Deprecated) |
| plot_network | Plot the network (Deprecated) |
| plotParamBifur | Parameter bifurcation plots |
| SimulatedPValueAbs | Finds the variance corresponding to a given value. |
| SimulatedVarPValue | Finds the variance corresponding to a given value. |
| simulateGRC | Simulate a gene regulatory circuit using RACIPE |
| sRACIPE | sRACIPE: A package for stochastic random circuit... |
| sRACIPE_load_configuration | (deprecated) Load the sRACIPE configuration from a file. |
| sRACIPE_load_topology | (deprecated) Load the topology from a file. |
