Service Notice: Due to the blizzard currently hammering the US Northeast, the Broad is shut down and the GATK forum will be mostly unattended while we hunker down and sip hot cocoa with marshmallows. Assuming the power stays on and we're able to dig ourselves out of the snow when it's all over, normal service should resume Wednesday or Thursday.

HaplotypeCaller and Reduced Reads

byb121byb121 UKPosts: 23Member

Hi,

I noticed that the statement "The interaction between the HaplotypeCaller and ReducedReads is still being worked out" is not in Guidebook of the lasted version (2.5.2) now. Does it mean that HaplotypeCaller now works well with Reduced BAMs and has the same accuracy as calls from un reduced BAMs, like UnifiedGenotyper? If this is true, it will certainly reduce the processing time of calling variants. Thanks in advance.

Best wishes,

Tagged:

Best Answers

Answers

Sign In or Register to comment.