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blastn in R using as a subject sequence a personally sequenced genome

Hi everybody,

do you know if it is possible to use blastn in R to align genes sequences (query sequence) to a personally sequenced bacterial genome (subject sequence).

Thank you.

blast r genome sequence alignment
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updated by Neilfws Neilfws • written by simone.moro.2 • simone.moro.2

1 answer

You can call external programs from within R, so I suppose you could call blastn. I'd think it was as easy to run blastn by itself, specify the delimited output option and read that into R.

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written by Neilfws Neilfws

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