Endosymbiont removal from insect WGS

I am beginner in using MEGAN6 LR community. I am trying to remove endosymbiont from insect genome. How I can achive that and have pure insect genome from that endosymbiont bacteria ?

I have done the following
1 Diamond blastx db nr with long read parameters – daa xxxx.daa

2 Meganize the xxx.daa

3 Megan has ncbi node and data node

4 how I can extract that bacterial endosymbiont from insect wgs ?

Thanks in advance

Select the nodes that you want to extract reads from and then use the extract reads menu item.

1 Like

Thank you very much for your support.

I am trying to do as you suggedt right now.