CreateHyperGeoTestAll: CreateHyperGeoTestAll
In broadinstitute/CommunityAMARETTO: CommunityAMARETTO: A Computational Tool for the Discovery of Shared and Distinct Regulatory Mechanisms Across Biological Systems
Description
Usage
Arguments
Value
Examples
View source: R/cAMARETTO_HTMLreport.R
Description
CreateHyperGeoTestAll
Usage
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CreateHyperGeoTestAll(
cAMARETTOresults,
cAMARETTOnetworkM,
cAMARETTOnetworkC,
hyper_geo_reference,
driverGSEA = TRUE,
NrCores = 4
)
Arguments
cAMARETTOresults
cAMARETTOresults object
cAMARETTOnetworkM
cAMARETTOnetworkM object
cAMARETTOnetworkC
cAMARETTOnetworkC object
hyper_geo_reference
a vector address for the gmt files.
driverGSEA
TRUE for inclusion of driver genes
in hypergeomertic test
NrCores
Nr of core for parallel processing
Value
Geneset Enrichment Analysis for the entire communities.
Examples
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try(
CreateHyperGeoTestAll(cAMARETTOresults,
cAMARETTOnetworkM,
cAMARETTOnetworkC,
hyper_geo_reference = './h.all.v6.2.symbols.gmt',
driverGSEA=TRUE,
NrCores=4)
)
broadinstitute/CommunityAMARETTO documentation built on April 6, 2020, 10:44 p.m.
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Description Usage Arguments Value Examples
View source: R/cAMARETTO_HTMLreport.R
Description
CreateHyperGeoTestAll
Usage
1 2 3 4 5 6 7 8 | CreateHyperGeoTestAll(
cAMARETTOresults,
cAMARETTOnetworkM,
cAMARETTOnetworkC,
hyper_geo_reference,
driverGSEA = TRUE,
NrCores = 4
)
|
Arguments
cAMARETTOresults |
cAMARETTOresults object |
cAMARETTOnetworkM |
cAMARETTOnetworkM object |
cAMARETTOnetworkC |
cAMARETTOnetworkC object |
hyper_geo_reference |
a vector address for the gmt files. |
driverGSEA |
TRUE for inclusion of driver genes in hypergeomertic test |
NrCores |
Nr of core for parallel processing |
Value
Geneset Enrichment Analysis for the entire communities.
Examples
1 2 3 4 5 6 7 8 | try(
CreateHyperGeoTestAll(cAMARETTOresults,
cAMARETTOnetworkM,
cAMARETTOnetworkC,
hyper_geo_reference = './h.all.v6.2.symbols.gmt',
driverGSEA=TRUE,
NrCores=4)
)
|
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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