testEdges {alakazam} | R Documentation |

## Tests for parent-child annotation enrichment in lineage trees

### Description

`testEdges`

performs a permutation test on a set of lineage trees to determine
the significance of an annotation's association with parent-child relationships.

### Usage

```
testEdges(
graphs,
field,
indirect = FALSE,
exclude = c("Germline", NA),
nperm = 200,
progress = FALSE
)
```

### Arguments

`graphs` |
list of igraph objects with vertex annotations. |

`field` |
string defining the annotation field to permute. |

`indirect` |
if |

`exclude` |
vector of strings defining |

`nperm` |
number of permutations to perform. |

`progress` |
if |

### Value

An EdgeTest object containing the test results and permutation realizations.

### See Also

Uses tableEdges and permuteLabels. See plotEdgeTest for plotting the permutation distributions.

### Examples

```
# Define example tree set
graphs <- ExampleTrees[1:10]
# Perform edge test on isotypes
x <- testEdges(graphs, "c_call", nperm=10)
print(x)
```

*alakazam*version 1.3.0 Index]