pingpong: pingpong

In ssviz: A small RNA-seq visualizer and analysis toolkit

Description

piRNA ping-pong analysis of complementary sequences

Usage

pingpong(bam_file)

Arguments

bam_file

An object of class data.frame or DataFrame

Details

The ping-pong mechanism is a proposed method for the amplification of primary piRNAs, which leads to the production of new primary piRNAs from their precursor transcripts, which eventually amplifies the pool of both primary and secondary piRNAs. This positive feedback loop is a secondary biogenesis mechanism that requires complementary transcripts to a pre-existing pool of piRNAs.

Value

This function returns a data.frame object with frequency of overlapping complementary piRNAs.

Author(s)

Diana H.P. Low

References

Brennecke J. et al. Cell 128, 1089-1103, March 23, 2007

Examples

data(ssviz)
pp<-pingpong(pctrlbam)

ssviz documentation built on Nov. 8, 2020, 5:53 p.m.