rDGIdbResult-class: Result object of a rDGIdb query

In cbg-ethz/rDGIdb: R Wrapper for DGIdb

Description

S4 helper functions to access DGIdb results, formatted in a similar way as result tables on the DGIdb web interface.

Usage

## S4 method for signature 'rDGIdbResult'
resultSummary(object)

## S4 method for signature 'rDGIdbResult'
detailedResults(object)

## S4 method for signature 'rDGIdbResult'
byGene(object)

## S4 method for signature 'rDGIdbResult'
searchTermSummary(object)

Arguments

object

A rDGIdbResult object returned by queryDGIdb.

Value

resultSummary returns a data.frame that summarizes drug-gene interactions by the source(s) that reported them.

detailedResult returns a data.frame with search terms matching exactly one gene that has one or more drug interactions.

byGene returns a data.frame with drug interaction count and druggable categories associated with each gene.

searchTermSummary returns a data.frame that summarizes the attempt to map gene names supplied by the user to gene records in DGIdb.

Author(s)

Thomas Thurnherr <[e-mail]>

References

Wagner AH, Coffman AC, Ainscough BJ, Spies NC, Skidmore ZL, Campbell KM, Krysiak K, Pan D, McMichael JF, Eldred JM, Walker JR, Wilson RK, Mardis ER, Griffith M, Griffith OL. DGIdb 2.0: mining clinically relevant drug-gene interactions. Nucleic Acids Research. 2016 Jan 4;44(D1):D1036-44. doi:10.1093/nar/gkv1165.

See Also

queryDGIdb, rDGIdbFilters, plotInteractionsBySource

Examples

genes <- c("XYZA", "TNF", "IL6", "IL8")
result <- queryDGIdb(genes = genes)
resultSummary(result)
detailedResults(result)
byGene(result)
searchTermSummary(result)

cbg-ethz/rDGIdb documentation built on May 13, 2019, 2:03 p.m.