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Question: Plasmid and Microorganism NGS
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gravatar for babdalhamid
7 weeks ago by
babdalhamid • 0
babdalhamid • 0 wrote:

Dear Sir/madam: I have 2 questions please:

1) I have WGS data that contains both human sequence and microbial sequence. How can I separate (extract) microbial sequence from human sequence. I am using Galaxy website tools.

2) How can separate (extract) plasmid sequence from bacterial chromosomal (genome) sequence? I am using a galaxy website tools.

Best regards Baha Abdalhamid
assembly microbiome metagenomics • 66 views
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modified 7 weeks ago by Jennifer Hillman Jackson ♦ 25k • written 7 weeks ago by babdalhamid • 0
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gravatar for Jennifer Hillman Jackson
7 weeks ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

This recent publication is a good place to start for your first question (microbiome analysis in Galaxy): https://academic.oup.com/gigascience/article/7/6/giy057/5001424

For the second, an assembly is one way to reconstruct both the original bacterial genome and any associated plasmids. Please see the Assembly and the Metagenomics tutorials here: http://galaxyproject.github.io/training-material/

Thanks, Jen, Galaxy team
ADD COMMENT • link written 7 weeks ago by Jennifer Hillman Jackson ♦ 25k
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