import.cosmic.cancer.gene.census.data: Import COSMIC Cancer Gene Census Data

Description Usage Arguments Value Author(s) References Examples

View source: R/import.cosmic.cancer.gene.census.data.R

Description

Import the COSMIC Cancer Gene Census curated list of oncogenes that has been downloaded from https://cancer.sanger.ac.uk/census (requires registration). The downloaded file can either be tab or comman separated values.

Usage

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Arguments

file

full path to the file containing the tab or comma separated file from https://cancer.sanger.ac.uk/census

sep

delimited used in the file (optional, default: \"\t\")

Value

Returns a dataframe with column "gene" containing the curated oncogenes.

Author(s)

Richard J. de Borja

References

https://cancer.sanger.ac.uk/census

Examples

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cosmic.file <- system.file('extdata', 'Census_allWed__Jul__13__14_22_47__2016.tsv', package='cosmic.cancer.gene.census')
cosmic <- import.cosmic.cancer.gene.census.data(file=cosmic.file, sep="\t")

shlienlab/cosmic.cancer.gene.census documentation built on May 19, 2017, 5:03 a.m.