build_coexp_GEOID: Builds a coexpression network given a GEO ID
In EGAD: Extending guilt by association by degree
Description
Usage
Arguments
Value
View source: R/build_coexp_GEOID.R
Description
The function generates a dense coexpression network from expression data stored in
GEO. The expression data is downloaded from GEO. Correlation coefficicents are used
as to weight the edges of the nodes (genes). Calls get_expression_matrix_from_GEO
and build_coexp_network.
Usage
1
build_coexp_GEOID(gseid, gene.list, method = "spearman", flag = "rank")
Arguments
gseid
string GEO ID of expression experiment
gene.list
array of gene labels
method
correlation method to use, default Spearman's rho
flag
string to indicate if the network should be ranked
Value
net Matrix symmetric
EGAD documentation built on Nov. 8, 2020, 8:31 p.m.
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Description Usage Arguments Value
View source: R/build_coexp_GEOID.R
Description
The function generates a dense coexpression network from expression data stored in
GEO. The expression data is downloaded from GEO. Correlation coefficicents are used
as to weight the edges of the nodes (genes). Calls get_expression_matrix_from_GEO
and build_coexp_network.
Usage
1 | build_coexp_GEOID(gseid, gene.list, method = "spearman", flag = "rank")
|
Arguments
gseid |
string GEO ID of expression experiment |
gene.list |
array of gene labels |
method |
correlation method to use, default Spearman's rho |
flag |
string to indicate if the network should be ranked |
Value
net Matrix symmetric
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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