concatenating a proteome to use Biostrings pairwiseAlignment
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Juliet Hannah ▴ 360
@juliet-hannah-4531
Last seen 2.4 years ago
United States

I have read in a proteome using

library("Biostrings")
infile <- "proteome.fasta"
proteome <- readAAStringSet(infile)

I would like to align a list of peptides using Biostrings::pairwiseAlignment so that I can use Biostrings::pid.

To do this, it seems I need to convert/concat everything in proteome into one sequence. xscat did not seem to be what I needed.

Is this something I can do in Biostrings or is there a better strategy. Thanks!

Biostrings alignment • 263 views
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