concatenating a proteome to use Biostrings pairwiseAlignment
0
0
Entering edit mode
Juliet Hannah ▴ 360
@juliet-hannah-4531
Last seen 5.6 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 • 891 views
ADD COMMENT

Login before adding your answer.

Traffic: 500 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6