to mark the duplicates
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2.4 years ago
manubiomed20 ▴ 10

I did a complete genome assembly and generated archivi bam. Now I need to mark the duplicates and I could not. How do I solve this problem?

Assembly Tutorial • 635 views
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You should really provide some more information for people to be able to help you.

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Well, what did you try?

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gatk MarkDuplicates \INPUT=home/ims.santos06/bam/SRR062634.bam\ 
                     OUTPUT=home/ims.santos06/bam/SRR062634_markduplicates.bam
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Were there any error messages?

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I used this command:

gatk MarkDuplicates \INPUT=home/ims.santos06/bam/SRR062634.bam\ 
                     OUTPUT=home/ims.santos06/bam/SRR062634_markduplicates.bam
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  1. Please do not add answers unless you're answering the top level question. The content you added belongs in the top level post, so please edit the post and add the content there.
  2. Please use the formatting bar (especially the code option) to present your post better. You can use backticks for inline code (`text` becomes text), or select a chunk of text and use the highlighted button to format it as a code block. I've done it for you this time.
    code_formatting
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