What Is The Difference Between 'Fragment Recruitment' And 'Aligning Reads To A Reference Sequence'?
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10.4 years ago
User 6228 ▴ 110

I have to perform 'fragment recruitment' on my metagenomic reads to generate plots of the percentage identity in the reference sequences. From what I can tell, fragment recruitment just amounts to aligning the reads to a reference sequence.

However I believe there are subtle differences in what these phrases mean that is causing me trouble. Could anyone clarify what the difference is, if there is one?

Thanks

reference blast • 4.7k views
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From Aleksandr's answer, I understand that 'fragment recruitment' applies specifically to metagenomic data and finding which species are represented, while 'aligning reads' applies to a broader range of read to reference sequence comparisons (for example, measuring how well a subset of mouse DNA is represented in a reference human genome)

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10.4 years ago
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Perfect, thank you. Could you explain in more detail what you mean about 'more culture around fragment recruitment'?

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Please see "fragment recruitment plots" in the link that I provided. By "more culture" I mean evolved methodologies like this plot. In a way Aligning Short reads is to broad of a term to have such methodologies associated with it.

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The link you provided is 404.

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