minimap2 icon indicating copy to clipboard operation
minimap2 copied to clipboard

Question about parameter -uf

Open dudududu12138 opened this issue 2 months ago • 0 comments

Hello, now I have a Nanopore cDNA sequencing data. And I detected the strands of every reads from the raw data. Then I mapped the reads to hg38 with minimap2 -ax splice -uf -t 8 $ref $reads >result.sam. But the strand of some reads are not matched with my detection. For example, this is a read that detected as '-' : @100:1591|SRR25723945.21919894 9167ca31-862e-4ff7-900e-b2e4da99787b length=1668 strand=-. But the mapping result reported it as a '+': 1713788898647 So which one should I choose from the 3 sets below? My data is neither a direct RNA nor an unknown strand data. 1713789009557

dudududu12138 avatar Apr 22 '24 12:04 dudududu12138