compareCases: Annotate integration sites by genes and TSSs.

In bioinfo16/RIPAT: Retroviral Integration Pattern Analysis Tool (RIPAT)

Description

Annotate vector integration sites by gene data.

Usage

compareCases(res_list, excelOut = TRUE,
             outPath = getwd(),
             outFileName = paste0('RIPAT', round(unclass(Sys.time()))))

Arguments

res_list	List. This is the list of result made by annoByGene, annoByCpG, annoByRepeat, annoByVar and annoByCGC function.
excelOut	TRUE or FALSE. If user want to make excel file, enter TRUE. Default is TRUE.
outPath	String. Outputs are saved in this path. Default value is R home directory.
outFileName	Character. Attached ID to the result file name.

Value

Return a result list that is made up of distribution plot and table.

Examples

data(blast_gene)
in_list = list(blast_gene, blast_gene)

comp_res = compareCases(res_list = in_list,
                        excelOut = FALSE,
                        outFileName = 'comp_res')

bioinfo16/RIPAT documentation built on Oct. 16, 2020, 1:39 p.m.