Difference between revisions of "Diag pipeline"
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| Line 15: | Line 15: | ||
= Advanced usage = | = Advanced usage = | ||
| + | == change snp caller == | ||
| + | == perform snp calling complete genome == | ||
| + | == perform snp calling on other reference than the pre-defined reference == | ||
| + | == use custom virulence database == | ||
= Dev = | = Dev = | ||
Revision as of 16:02, 1 November 2018
Basic usage
With Docker
Whithout Docker
Setup reference data
Core genome
VFDB database
Advanced usage
change snp caller
perform snp calling complete genome
perform snp calling on other reference than the pre-defined reference
use custom virulence database
Dev
Take example of
https://github.com/pnnl/hundo/blob/master/hundo/scripts/build_report.py