refine_mappings: Refine pathway by cell type
In uc-bd2k/KEGGlincs: Visualize all edges within a KEGG pathway and overlay LINCS data [option]

Reduce the KEGG pathway by only including genes that are expressed within a given cell type

1	refine_mappings(KEGG_mappings, cell_line)

`KEGG_mappings`	The data.frame object generated by the function expand_KEGG_mappings
`cell_line`	Choose from the set of cell lines with baseline data; cell-lines may or may not have corresponding KO data

A dataframe object with reduced set of pathway mappings to be passed on to other functions

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p53_KGML <- get_KGML("hsa04115")
p53_KEGG_mappings <-  expand_KEGG_mappings(p53_KGML)
MCF7_p53_mappings <- refine_mappings(p53_KEGG_mappings, "MCF7")

uc-bd2k/KEGGlincs documentation built on May 3, 2019, 2:13 p.m.

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