It seems that the values which hisat2 writes in the MAPQ column are not defined anywhere. Apparently values are 0, 1, and 60. What is the meaning of these values?
When using hisat2 output as input of stringtie, which kind(s) of filtering are recommended?
It seems that the values which hisat2 writes in the MAPQ column are not defined anywhere. Apparently values are 0, 1, and 60. What is the meaning of these values?
When using hisat2 output as input of stringtie, which kind(s) of filtering are recommended?