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alekseyzimin / masurca

GNU General Public License v3.0
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MaSuRCA version 4.0.3 final output #229

Open VMJarocki opened 3 years ago

VMJarocki commented 3 years ago

I ran /path_to_MaSuRCA/bin/masurca -t 32 -i /path_to/pe_R1.fa,/path_to/pe_R2.fa -r /path_to/nanopore.fastq.gz with seemingly no issues but I can't find "final.genome.scf.fasta" There is a "primary.genome.scf.fasta (and alternative.genome.scf.fasta) in CA - is this the final assembly?

tomoakin commented 2 years ago

README.md says as such.:

Assembly result.

The final assembly scaffolds file is under CA/{primary,alternative}.scf.fasta or CA.mr...../{primary,alternative}.scf.fasta if CABOG assembler was used for contigging/scaffolding, which is default, or flye.mr....../assembly.scaffolds.fasta if Flye was used for final contigging/scaffolding.