regarding cigar string directions

vpc-ccg / sedef

Identification of segmental duplications in the genome

MIT License

26 stars 8 forks source link

Closed yangyxt closed 2 years ago

yangyxt commented 3 years ago

Thank you for making this!

I wonder which strand is the query strand and which strand is the ref strand for the cigar string in final table. SD1 or SD2 ?

Thanks!

inumanag commented 2 years ago

Hi @yangyxt

SEDEF is now deprecated in favour of BISER.

As for your question: the query is the first mate, and the reference is the second mate.