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BGI-Qingdao / TGS-GapCloser

A gap-closing software tool that uses long reads to enhance genome assembly.
GNU General Public License v3.0
183 stars 13 forks source link

-g_check flag #35

Closed KyleEwart closed 3 years ago

KyleEwart commented 3 years ago

Hi, Thanks for develpoing this program. I have used the program to improve my assembly BUSCO score with very low-coverage HiFi data. Can you please elaborate on what the '--g_check' flag does. Apologies if this is already explained in the documentation - I can only see a brief explanation of this flag. Thanks

cchd0001 commented 3 years ago

Hi,

Set the --g_check flag will open the gap size checking function for length>100bp gaps :

reject the gap-filling action if the length of the sequence to fill this gap is either 50% shorter or 100% longer than the original gap size.

Best wishes Lidong Guo