filterPrimers: filter primers based on thresholds

In BIMSBbioinfo/AmpliconBiSeq: analyzing amplicon bisulfite sequencing data

Description

filterPrimers filters the primers based on covered CGs on amplicons and number of non-CpG Cs on the primers

Usage

filterPrimers(primers, minConPrimer = 1, minCGonAmp = 2)

Arguments

primers	a list of primers returned by designPrimers or a data frame returned by filterPrimers function with as.data.frame=TRUE argument.
minConPrimer	minimum number of non-CpG Cs on the primers
minCGonAmp	minimum number of CpGs covered on the targeted region

Author(s)

Based on Arnaud Krebs' function, modified by Altuna Akalin

See Also

primers2ranges, designPrimers

Examples

data(bisPrimers)
          filt.primers=filterPrimers(bisPrimers,minConPrimer=1,minCGonAmp=1)

BIMSBbioinfo/AmpliconBiSeq documentation built on May 5, 2019, 10:25 a.m.