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Requirements

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nyoungb2 edited this page Sep 19, 2013 · 9 revisions

Database construction

sqlite3 (tested on v3.7.17)
BioPerl (tested on v1.006901)
ITEP (if plotting genes in loci plots)

Spacer, direct repeat, and leader clustering

cd-hit-est (tested on v4.6)

Spacer blasting

blast+ toolkit (tested on 2.2.27+)

Plotting loci

R (tested on v3.0.1)
R package: genoPlotR (tested on v0.8)