script to aggregate >1 snippy snp.tab files for easy comparison#101
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nickloman wants to merge 1 commit intotseemann:masterfrom
Open
script to aggregate >1 snippy snp.tab files for easy comparison#101nickloman wants to merge 1 commit intotseemann:masterfrom
nickloman wants to merge 1 commit intotseemann:masterfrom
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I also combine the individual Snippy output into one file using scripts for machine learning parsing. Format for combined Snippy output can be a possible input for Scoary or other GWAS like analysis. I usually just pivot the tables |
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Hi Torst
This is a little script that can be used to aggregate more than 1 snps.tab files from multiple Snippy runs (assuming same reference) into a single tab file to find common/distinct mutations. I find it useful for analysing the results of in vitro evolution experiments.
It's in Python. Sorry in advance but if you could make use of it please do!
Best
Nick