expand_seeds: Expansion of the seed network
In InfOmics/LErNet: LErNet: characterization of lncRNAs via context-aware network expansion and enrichment analysis
Description
Usage
Arguments
Value
Description
Expands with connectors the network formed by seed proteins,
that are the produtcs of the genes in the genomic context and in the interaction context,
by the expansion algorithm.
Connectors are neighbors of selected proteins in the input PPI network.
Usage
1
expand_seeds(seeds, ppi_network, de_proteins = NULL)
Arguments
seeds
a list produced by get_genomic_context and search_in_arenaidb
ppi_network
a two column data.frame representing PPI network edges (see also get_stringdb )
de_proteins
a vector of stricted proteins. If empty, the complete set of neighbors is extracted otherwise only pcgenes in this set are taken into account.
Value
a list
- out_components
a list of connected components of the resultant expanded network. Each compoent is a list of proteins.
InfOmics/LErNet documentation built on April 10, 2021, 4:49 p.m.
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Description Usage Arguments Value
Description
Expands with connectors the network formed by seed proteins, that are the produtcs of the genes in the genomic context and in the interaction context, by the expansion algorithm. Connectors are neighbors of selected proteins in the input PPI network.
Usage
1 | expand_seeds(seeds, ppi_network, de_proteins = NULL)
|
Arguments
seeds |
a list produced by |
ppi_network |
a two column data.frame representing PPI network edges (see also |
de_proteins |
a vector of stricted proteins. If empty, the complete set of neighbors is extracted otherwise only pcgenes in this set are taken into account. |
Value
a list
- out_components
a list of connected components of the resultant expanded network. Each compoent is a list of proteins.
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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