Using Assembled Contig Data with Melon: Compatibility and Guidelines

[ystone1101]

Hi,

Does Melon accept assembled contig data produced from short-read sequencing data using assemblers (e.g., MEGAHIT, metaSPAdes...) ?

[xinehc]

Hi,

Melon is a read-based taxonomic profiler so it does not work with contigs.

[ystone1101]

Hi, Thank you for the clarification.

[muhit-emon]

Hi,

Does Melon work with assembled contigs from long-read data using assemblers like Canu, MetaFlye?

[xinehc]

Hi,

no, the main usage of Melon is to estimate the genome copies of different species in a metagenomic sample. Since assembled contigs do not have the coverage information Melon cannot handle them.