Question: traversal stats explanations
gravatar for pbigbig
5.3 years ago by
United States
pbigbig210 wrote:

Hi all,

I have done several assemblies via Minia, then summarized them with QUAST, I notice that QUAST provides a nice heatmap representation of data, make it easier to visualize which k  is the best candidate. I intend to add to this heatmapped table the traversal stats made post-run by minia (see below)

debugging traversal stats                                                            
        large breadth                                            
        large depth                                
        marked kmer inside traversal                                            
        traversal ends with dead-ends                                         
        in-branching large depth                                     
        in-branching large breadth                                 
        in-branching other                                 
        couldn't validate consensuses

I supposed that the lower these values are, the better, but I am not quite sure about this. I have read info in minia short manual but couldn't find explanation.

Thank you very much for helping!


ADD COMMENTlink modified 5.3 years ago • written 5.3 years ago by pbigbig210
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