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moiexpositoalonsolab / grenepipe

A flexible, scalable, and reproducible pipeline to automate variant calling from raw sequence reads, with lots of bells and whistles.
http://grene-net.org
GNU General Public License v3.0
93 stars 21 forks source link

feature request: pass local reference genome database to snpEff #13

Closed bensprung closed 2 years ago

bensprung commented 3 years ago

The pre-built references databases that snpEff can download may be limiting in some use cases. Therefore it might be helpful to allow the use of user-prepared reference databases.

lczech commented 2 years ago

Hi @bensprung,

yes, this is already on my todo list. Let's see when I get to do this ;-)

Lucas

lczech commented 2 years ago

Finally added in the latest commit. Hope that helps, @bensprung ;-)