Thanks everyone for the reply. I have Oxford nanopore reads. but it has an N50 value of 2500 bp and most of the reads have quality scores less than 28. I assembled them with flye and raven then used links for scaffolding and gap2seq for gap filling using BGseq reads. but I found only 2 complete busco in them. That's why I thought to go through making super reads from BGseq reads(shot reads) and perform hybrid assembly.
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manaswiniparija3 •
I'd love to be proven wrong, but common sense tells me that there is no free server with 256Gb RAM, 32+ cores, 2Tb disk space. My suggestion is to look for paid servers if funding is available. If not, it still may be better to partner with someone at an educational institution that has access to a computer with these specs.
ok thanks
I would just use the long reads to generate an assembly by themselves using a long-read assembler, then polish using the shirt reads if it is necessary. You can also try downsampling the raw data too in order to reduce your computational requirements.