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Old 06-22-2021, 11:24 PM   #1
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Default Genome Assembly

I have Illumina sequenced paired-end reads of an arthropod genome. I already mapped my reads to the reference genome and generated a BAM file and a variant call format file. Which reference based assembler should I use? I also thought to do the de novo assembly first and then use the reference to help scaffolding.
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bam fil, genome assembly, illunima, reference-based assembly, vcf file

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