question: `--by` and quantized output

Question

question: `--by` and quantized output

matthdsm opened this issue a year ago · comments

Hi Brent

Is the quantized output supposed to be filtered by the regions given in --by ? I'm trying to create "callable" loci within a set ROI for exome analysis.

Thanks
M

Brent Pedersen · Answer 1 · Sat Jan 14 2023 00:38:48 GMT+0800 (China Standard Time)

Hi Matthias, no, it still outputs the full genome. But it should be simple to do a bedtools intersect with target regions afterward.

Matthias De Smet · Answer 2 · Sat Jan 14 2023 01:27:53 GMT+0800 (China Standard Time)

guessed something like that. Thanks for the reply!

Matthias