Question: traversal stats explanations
0
gravatar for pbigbig
18 months ago by
pbigbig160
United States
pbigbig160 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 18 months ago • written 18 months ago by pbigbig160
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