Holiday Notice:
The Frontline Support team will be offline February 18 for President's Day but will be back February 19th. Thank you for your patience as we get to all of your questions!

Picard 1.96 - Reads on target

alexsonalexson Member
edited May 2018 in Ask the GATK team

How does Picard 1.96 calculate "reads on target", for example, if only one nucleotide of a read matches a target, does that count as a "read on target"?

Tagged:

Answers

  • SheilaSheila Broad InstituteMember, Broadie, Moderator admin

    @alexson
    Hi,

    I think the tool counts any reads that are mapping within the target intervals. But, which specific tool are you asking about? You may also consider upgrading, as 1.96 is pretty old.

    -Sheila

Sign In or Register to comment.