Extract the sizes of all sequences in a paf alignment

chrom_sizes(ali)

Arguments

ali	pafr or tibble containing the genome alignment (as returned by `read_paf`)

Value

list with two elements (tlens and qlens) Each element is a dataframe with one column of sequence names and another column containing the length of each sequence

Examples

ali <- read_paf( system.file("extdata", "fungi.paf", package="pafr") )
chrom_sizes(ali)
#> $qlens
#>       qname    qlen
#> 1    Q_chr1 6273420
#> 388  Q_chr2 5852505
#> 792  Q_chr3 4992232
#> 1226 Q_chr4 4808386
#> 1654 Q_chr5 4708905
#> 2005 Q_chr6 4343484
#> 2315 Q_chr7 3141109
#> 2486 Q_chrm   85999
#> 
#> $tlens
#>       tname    tlen
#> 1    T_chr2 5893594
#> 2    T_chr5 4620715
#> 59   T_chr6 3360039
#> 64   T_chr4 4649703
#> 75   T_chr1 6377790
#> 76   T_chr3 5539885
#> 79   T_chr7 3267564
#> 2486 T_chrm  111040
#>