参数设置调整

[kuangtianhui]

我用”wtdbg2 -x ont -p 19 -AS 2 -s 0.05 -L 5000 --edge-min 4 -g 1.4g -t 40“ 参数组装基因组，基因组组装结果为3.9Gb。当我把--edge-min 8，基因组大小为1.14Gb.但是，但是这两个组装结果的contig数目都超过了20000，N50的值没有超过100KB。请问您能提供一些宝贵的建议吗？

[ruanjue]

It should be a complicate genome, try tune parameters -R, --aln-dovetail 0 and others referred in issues.

[kuangtianhui]

This genome is highly repetitive, but with low heterogeneity rate. What's your suggestions about the settings? How does the parameter --edge-min work? I tried 2, 4, 8, but get very different assembly results (genome size).

[mengnanwang96]

I want to know what is the maining of parameter -e and how it works, thank you sir

[ruanjue]

The minimal count of reads to support that two genomic regions are directly connected in order. On graph, the minimal count of reads to support a confident edge.