Merging paired end Illumina reads in R
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@jpleonard2000-8886
Last seen 7.2 years ago

Are there any functions in the bioconductor packages that merge Illumina paired end reads, similar to FLASH or PEAR? I assumed this would be a function in ShortReads but couldn't find anything about this in the documentation. Thanks.

merge • 1.5k views
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@martin-morgan-1513
Last seen 9 days ago
United States

This is not possible in ShortRead; I do not know of an implementation in Bioconductor.

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mcmurdie ▴ 20
@mcmurdie-7851
Last seen 10 months ago
United States

It looks like the Rfastp package has explicit support for this. I'm testing it out now, so not sure how well it works yet.

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