geneNIDG: GeneSurrounder wrapper
In sahildshah1/gene-surrounder: GeneSurrounder
Description
The GeneSurrounder method consists of two tests that are run
independently of each other and then combined to determine if
the putative disease gene is a “disruptive” candidate disease gene
meeting both criteria.
Usage
1
2
geneNIDG(distance.matrix, cor.matrix, geneStats.observed, perm.geneStats.matrix,
genes.assayedETnetwork, diameter, num.Sphere.resamples, gene.id)
Arguments
distance.matrix
A matrix of the distances on the global network
cor.matrix
A matrix of correlations between the expression of the genes
geneStats.observed
A vector of the observed differential expression
perm.geneStats.matrix
A matrix of the resampled differential expression
genes.assayedETnetwork
The names of the genes that are assayed and on the network
diameter
The diameter of the global network
num.Sphere.resamples
The number of resamples when running the Sphere of Influence Procedure
gene.id
The name of the gene to which GeneSurrounder is applied
sahildshah1/gene-surrounder documentation built on May 27, 2019, 7:27 a.m.
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Description
The GeneSurrounder method consists of two tests that are run independently of each other and then combined to determine if the putative disease gene is a “disruptive” candidate disease gene meeting both criteria.
Usage
1 2 | geneNIDG(distance.matrix, cor.matrix, geneStats.observed, perm.geneStats.matrix,
genes.assayedETnetwork, diameter, num.Sphere.resamples, gene.id)
|
Arguments
distance.matrix |
A matrix of the distances on the global network |
cor.matrix |
A matrix of correlations between the expression of the genes |
geneStats.observed |
A vector of the observed differential expression |
perm.geneStats.matrix |
A matrix of the resampled differential expression |
genes.assayedETnetwork |
The names of the genes that are assayed and on the network |
diameter |
The diameter of the global network |
num.Sphere.resamples |
The number of resamples when running the Sphere of Influence Procedure |
gene.id |
The name of the gene to which GeneSurrounder is applied |
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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