SSPACE option (-k and -a) for scaffolding
0
0
Entering edit mode
8.0 years ago
Picasa ▴ 650

Hi,

I am trying to play with SSPACE's parameters, especially the -k and -a option.

According to the manual:

-k  Minimum number of links (read pairs) to compute scaffold (default -k 5, optional)

-a  Maximum link ratio between two best contig pairs *higher values lead to least accurate scaffolding* (default -a 0.7, optional)

But I am not sure to understand those 2 options. If someone has better and clear explanation, it will be helpful.

Thanks!

sspace • 1.8k views
ADD COMMENT

Login before adding your answer.

Traffic: 1749 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6