[wgs-assembler-users] Wrong GC-content and lower quality assembly

[Mayank M. <may...@ic...>]

Hello,
     I just downloaded the new wgs-assembler 4 days ago. The GC  
content reported by caqc.pl in the end is wrong. When I calculate GC  
using the XXX.scf.fasta file I get 3% higher GC content which is  
correct as verified using assemblers. Also the quality of assembly has  
decreased now as compared to the release from the  last month. I have  
tried different coverage and parameters but there are always these  
extremely sceptic regions with almost no coverage or too much coverage.

Warm Regards,
Mayank Mahajan