Merging Contigs

Question

[noorussubah95]

HI,

I have contigs from two different assemblers but I want to merge contigs based on the overlap to increase the depth/coverage. What are the best available tools for performing this type of analysis?

Answer 1

[Mark]

There's Pilon

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4237348/

and

https://github.com/mahulchak/quickmerge