get_depmap_essentiality: Get essential/selective gene information from DepMap summary...
In j-andrews7/CRISPRball: Shiny Application for Interactive CRISPR Screen Visualization, Exploration, Comparison, and Filtering
get_depmap_essentiality R Documentation
Get essential/selective gene information from DepMap summary table.
Description
Get essential/selective gene information from DepMap summary table.
Usage
get_depmap_essentiality(gene, depmap.summary)
Arguments
gene
Character scalar for gene symbol.
depmap.summary
data.frame containing DepMap gene summary information.
Value
Named list containing RNAi and CRISPR named lists containing dataset information for the provided gene,
if available. If the gene is not found in the summary data.frame, the avail element for the RNAi and CRISPR lists
will be set to FALSE.
Author(s)
Jared Andrews
Examples
library(CRISPRball)
build_depmap_db(retrieve = "gene.summary")
pool <- pool::dbPool(RSQLite::SQLite(), dbname = "depmap_db.sqlite")
depmap.gene <- pool::dbGetQuery(pool, "SELECT * FROM 'gene.summary'")
essentials <- get_depmap_essentiality(gene = "CDK2", depmap.summary = depmap.gene)
j-andrews7/CRISPRball documentation built on Nov. 30, 2023, 7:34 p.m.
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.
| get_depmap_essentiality | R Documentation |
Get essential/selective gene information from DepMap summary table.
Description
Get essential/selective gene information from DepMap summary table.
Usage
get_depmap_essentiality(gene, depmap.summary)
Arguments
gene |
Character scalar for gene symbol. |
depmap.summary |
data.frame containing DepMap gene summary information. |
Value
Named list containing RNAi and CRISPR named lists containing dataset information for the provided gene,
if available. If the gene is not found in the summary data.frame, the avail element for the RNAi and CRISPR lists
will be set to FALSE.
Author(s)
Jared Andrews
Examples
library(CRISPRball)
build_depmap_db(retrieve = "gene.summary")
pool <- pool::dbPool(RSQLite::SQLite(), dbname = "depmap_db.sqlite")
depmap.gene <- pool::dbGetQuery(pool, "SELECT * FROM 'gene.summary'")
essentials <- get_depmap_essentiality(gene = "CDK2", depmap.summary = depmap.gene)
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.