integPatternByChr: Retroviral integration pattern on chromosomes

Description Usage Arguments Value Examples

View source: R/integPatternByChr.R

Description

Check retroviral integration pattern on chromosomes

Usage

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integPatternByChr(hits, ran_hits, excelOut = TRUE,
                  isExpList = FALSE, isRanList = FALSE,
                  outPath = getwd(),
                  outFileName = paste0('RIPAT', round(unclass(Sys.time()))))

Arguments

hits

a GR object or list. This object made by makeInputObj function.

ran_hits

a GR object or list. This object is output of ranSetGenerator function.

excelOut

TRUE or FALSE. If user want to make excel file, enter TRUE. Default is TRUE.

isExpList

TRUE or FALSE. If hits is the list of several experimental data,
enter TRUE. Default is FALSE.

isRanList

TRUE or FALSE. If ran_hits is the list several random data,
enter TRUE. Default is FALSE.

outPath

a string vector. Directory path of tab-deliminated hit files
generated by this function.

outFileName

a character vector. Attached character to the result file name.

Value

Return a result list that is made up of table(s) about
experimental/random data integration frequency on chromosomes.

Examples

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