Training of logical models from indirect measurements of
perturbation experiments
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Documentation for package ‘bnem’ version 1.8.0
Help Pages
| absorption | Absorption |
| absorptionII | Inverse absorption |
| addNoise | Add noise |
| bcr | B-Cell receptor signalling perturbations |
| bnem | Boolean Nested Effects Model main function |
| bnemBs | Bootstraped Network |
| computeFc | Compute differential effects |
| convertGraph | Convert normal form |
| dummyCNOlist | Create dummy CNOlist |
| epiNEM2Bg | Switch between epiNEM and B-NEM |
| findResiduals | Compute residuals |
| plot.bnem | plot bnem opbject |
| plot.bnemBs | Plot Bootstrap result |
| plot.bnemsim | plot simulation object |
| processDataBCR | BCR perturbation reproduction |
| randomDnf | sample normal form |
| reduceGraph | Reduce graph |
| scoreDnf | score a boolean network |
| simBoolGtn | Sample random network and simulate data |
| simulateStatesRecursive | Simulate states |
| transClose | transitive closure |
| transRed | transitive reduction |
| validateGraph | validate graph |