get_KGML: Download and parse KGML file
In shanawhite-UC/KEGGlincs: Visualize all edges within a KEGG pathway and overlay LINCS data
Description
Usage
Arguments
Value
Examples
Description
Download and parse KGML file
Usage
1
Arguments
pathwayid
A KEGG pathway ID of the form "hsa12345"
(only human pathways currently)
get_if_no_edges
A logical indicator; if pathway has no edges
returns null value if set to TRUE
Value
an object of Formal class KEGGPathway
Examples
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8
mtor_KGML <- get_KGML("hsa04150")
# Some pathways contain only node information; since the purpose of this
# package is to explore pathways in an edge-focused manner, the default
# options return a warning message instead of a parsed KGML file if the
# input pathway has no edges.
ribosome_KGML <- get_KGML("hsa03020")
ribosome_KGML <- get_KGML("hsa03020", get_if_no_edges = TRUE)
shanawhite-UC/KEGGlincs documentation built on May 29, 2019, 8:07 p.m.
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Description Usage Arguments Value Examples
Description
Download and parse KGML file
Usage
1 |
Arguments
pathwayid |
A KEGG pathway ID of the form "hsa12345" (only human pathways currently) |
get_if_no_edges |
A logical indicator; if pathway has no edges returns null value if set to TRUE |
Value
an object of Formal class KEGGPathway
Examples
1 2 3 4 5 6 7 8 | mtor_KGML <- get_KGML("hsa04150")
# Some pathways contain only node information; since the purpose of this
# package is to explore pathways in an edge-focused manner, the default
# options return a warning message instead of a parsed KGML file if the
# input pathway has no edges.
ribosome_KGML <- get_KGML("hsa03020")
ribosome_KGML <- get_KGML("hsa03020", get_if_no_edges = TRUE)
|
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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