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Old 08-24-2017, 02:34 PM   #3
vsnishtala
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Location: Rostock

Join Date: Jul 2017
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Quote:
Originally Posted by Brian Bushnell View Post
I don't know what's best for metagenome variant-calling, but a couple of additional options are Samtools mpilup + bcftools, and BBMap's CallVariants. I wrote a suggested variant-calling pipeline in the BBMap page, at bbmap/pipelines/variantPipeline.sh, which gives an example of how to preprocess the data and call variants.
Thank you Brain Bushnell i will look into it !
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