qdg.perm.test {qdg} | R Documentation |
Conduct permutation test for LOD score of edge direction on directed graph.
qdg.perm.test(cross, nperm, node1, node2, common.cov = NULL, DG, QTLs, addcov = NULL, intcov = NULL) ## S3 method for class 'qdg.perm.test': summary(object, ...) ## S3 method for class 'qdg.perm.test': print(x, ...)
cross |
Object of class cross (see read.cross ). |
nperm |
Number of permutations. |
node1 |
Character string with name of a phenotype nodes. |
node2 |
Character string with name of a phenotype nodes. |
common.cov |
Character string with name of common phenotype covariates. |
DG |
Directed graph of class QDG |
QTLs |
List of objects of class qtl . |
addcov |
Names of additive covariates. Must be valid phenotype
names in cross . Expanded to include all intcov names. |
intcov |
Names of additive covariates. Must be valid phenotype
names in cross . |
x,object |
Object of class qdg.perm.test . |
... |
Additional arguments ignored. |
qdg.perm.test
performs nperm
permutation-based test
of LOD score for an
edge of a directed graph.
List composed by:
pvalue |
Permutation p-value. |
obs.lod |
Observed LOD score. |
PermSample |
Permutation LOD scores sample. |
node1 |
Character string with name of a phenotype nodes. |
node2 |
Character string with name of a phenotype nodes. |
Chaibub Neto et al. (2008) Inferring causal phenotype networks from segregating populations. Genetics 179: 1089-1100.
## Not run: example(glxnet) ## End(Not run)