From: vandersm <vandersm@mail.uc.edu>
git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/KEGGlincs@127888 bc3139a8-67e5-0310-9ffc-ced21a209358
Shana White authored on 30/03/2017 20:47:47 git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/KEGGlincs@122278 bc3139a8-67e5-0310-9ffc-ced21a209358
Martin Morgan authored on 12/10/2016 17:44:52 | 1 | 1 |
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+% Generated by roxygen2: do not edit by hand |
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+% Please edit documentation in R/path_genes_by_cell_type.R |
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+\name{path_genes_by_cell_type}
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+\alias{path_genes_by_cell_type}
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+\title{See how many pathway gene knock-outs are available from data}
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+\usage{
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+path_genes_by_cell_type(KEGG_mappings, pert_time = 96, get_KOs = FALSE, |
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+ generate_plot = TRUE) |
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+} |
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+\arguments{
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+\item{KEGG_mappings}{KEGG_mappings The data.frame object generated by the
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+function expand_KEGG_mappings} |
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+ |
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+\item{pert_time}{Choose from (6,24,48,96,120,144,168)}
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+ |
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+\item{get_KOs}{Logical indicator to have data frame returned}
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+ |
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+\item{generate_plot}{Logical indicator to generate histogram}
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+} |
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+\value{
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+A plot depicting percentage of pathway genes knocked-out by |
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+cell line and a data frame object listing the genes [by cell line] |
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+} |
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+\description{
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+Check quantity of data across cell lines available from LINCS |
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+ corresponding to the pathway of interest |
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+} |
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+\examples{
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+p53_KGML <- get_KGML("hsa04115")
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+p53_KEGG_mappings <- expand_KEGG_mappings(p53_KGML) |
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+ |
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+path_genes_by_cell_type(p53_KEGG_mappings) |
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+} |
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+ |