wgbs_tools
wgbs_tools copied to clipboard
bam2pat for nanopore data has some problem in recognising CIGARX string
It seems bam2pat for nanopore data has some problem in recognising "eXtended CIGAR", or CIGARX string.
8,229,233,213,224,53,229,57,235,252,255,255,115,249,247,185,231,247,57,139,181,235,251,74,126,165,34,254,255,170,186,193,255,255,254,241,235,237,255,255,254,238,225,14,254,238,253,255,66,254,254,247 RG:Z:c969ee83 mc:f:99.5874 mg:f:99.6108 NM:i:72
[ patter ] [ patter ] Unknown CIGAR character: =
[ patter ] [ chr9 ] Exception while processing line 798. Line content:
m64101_220704_113609/114427486/ccs 0 chr9 239949 60 8034=1I565=4D2297= * 0 10900 ATTTCCAGTTATTCACATTAGAAACAGTACACCACTGAATAAATTTATGCATTCATCTTTGCTTACCTCTTTAATGATTCTTCACGATAAATGCTAGAAATAGAACCACAGACTTAAAGGTCTCCATTGATATGTGTGGC