filter_secondary_alignments {pafr}

Remove secondary alignments from a pafr alignment

Description

Remove secondary alignments from a pafr alignment

Usage

filter_secondary_alignments(ali, remove_inversions = FALSE)

Arguments

ali

Genomic alignment in pafr or tbl_df format, as returned by read_paf

remove_inversions

logical If TRUE, also remove inversions (tp flag 'I' or 'i') from the alignment

Examples

ali <- read_paf( system.file("extdata", "fungi.paf", package="pafr") ) 
ali
filter_secondary_alignments(ali)