The most important aspect of genome assembly is the algorithm that is used. The important genomic features that will will affect the choice are genome size, heterozygosity are proportion of low complexity sequences.

assembler	genome_size	heterozygosity	pros	cons
Falcon	any	any	handling variable levels of haplotype divergence	hard to install
Canu	any	low or high	elegant read correction, nice assembly reports
HGAP	bacterial size		usually single contig assembly of bacteria	slow, hard to install
Miniasm	any	low	easy to install, super fast to run	not that accurate

It is important to mention that for different genomes you might need to consider replacing one of the Overlap-Layout-Consensus steps by an alternative approach that suits to your genome.

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Go to tutorial assembly using Canu .

Go to tutorial assembly using Miniasm .

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