Release 1.3.0 #70
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Release 1.3.0 #70
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I've just added a flag for setting the minimum read depth for the coverage mask, which will close artic-network/artic-ncov2019#49 |
…rt regardless of strict, setting strict to filter VCF
…ctivate using --strict flag to minion
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Have now removed longshot entirely and got the medaka filter to replicate the previous pass calls. We now install medaka via pip (due to OSX support missing from conda) and consequently need to add Whatshap and Parasail to the conda env (as pip failed to get these for OSX). |
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prior to review, I'll add in the fix discussed over at artic-network/artic-ncov2019#38 |
… have been masked out in the preconsensus
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have now added an extra command to the pipeline - This will remove vars from the pass.vcf if they have been masked out in the preconsensus. |
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ready for review @nickloman |
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This PR will close #69 once we are ready to merge and release the next minor version of artic (1.3.0).