Viral metagenomics of RNA virus on transcriptomics data workflow

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Hi everyone,

I wanna perform a Viral metagenomics study of transcriptomics data. So I need to extract the unmapped reads and assemble them. My questions are :

1- do this script of samtools suit my purpose :

samtools view -b [email protected] 8 -f12 sample.bam > sample_unmapped.bam

2- About the assembly, do you have a suggestion for me, please?

3- For the annotation, is blast database suitable?

Thanks in advance


Viral


metagenomics


workflow

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