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| confidence | provides various kinds of confidence measures for an inferred progression model |
| confidence.conditional | provides various kinds of confidence measures for an inferred progression model |
| confidence.data.conditional | provides various kinds of confidence measures for an inferred progression model |
| confidence.data.joint | provides various kinds of confidence measures for an inferred progression model |
| confidence.data.single | provides various kinds of confidence measures for an inferred progression model |
| confidence.fit.conditional | provides various kinds of confidence measures for an inferred progression model |
| confidence.fit.joint | provides various kinds of confidence measures for an inferred progression model |
| confidence.fit.single | provides various kinds of confidence measures for an inferred progression model |
| confidence.joint | provides various kinds of confidence measures for an inferred progression model |
| confidence.single | provides various kinds of confidence measures for an inferred progression model |
| data.load | load a dataset (binary matrix) from a file or a preloaded dataset. |
| events | Events collection for Ovarian cancer CGH data |
| events.add | add a new event (e.g., a missense point mutation for EGFR) |
| events.load | load a set of events from file |
| ov.cgh | Ovarian cancer CGH data |
| reset | reset |
| reset.events | reset |
| reset.types | reset |
| tronco.bootstrap | perform bootstrap algorithm |
| tronco.bootstrap.show | show bootstrapping results |
| tronco.caprese | runs CAPRESE algorithm |
| tronco.plot | plot a progression model |
| types | Types collection for Ovarian cancer CGH data |
| types.add | add a new type of event (e.g., missense point mutation) |
| types.load | load a set of types from file |