Question: SSPACE option (-k and -a) for scaffolding
22 months ago by
Picasa • 380
Picasa • 380 wrote:
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.
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