Recommended coverage

[TransGirlCodes]

Hi, is there a recommended level of sequencing coverage for this assembler?

[AntonBankevich]

Hi! Thank you for your interest in LJA and sorry for the late reply. For a good assembly it would be nice to have coverage at least 20 per haplome (e.g. at least 40 for diploid genome). But coverage around 15 should also produce an ok result. We are looking into optimizing algorithms for lower coverage but if you are interested in assembling truly difficult parts of the genome you do need 20+ coverage. Otherwise you risk having coverage breaks and making misassemblies.