brentp / smoove

structural variant calling and genotyping with existing tools, but, smoothly.
Apache License 2.0
222 stars 21 forks source link

Multiple issues #229

Open carsonhh opened 9 months ago

carsonhh commented 9 months ago

Hey Brent this is Carson,

Just opening an issue to help track these.

Multiple issues:

  1. Duplicate features (i.e. same variant but two lines)
  2. PREND in header but missing from feature line
  3. Alternately PREND in feature line but missing from header
  4. END is less than start position in feature line

Right now I have a script that just removes the line when any of these happen. I can show you the specific projects where these happen, just let me know when you are ready to look at these