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@PHILIPP111007 PHILIPP111007 released this 06 Sep 17:48
· 88 commits to main since this release
1.2.5
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Learn about vigilant mode.

You can filter .vcf and .vcf.gz files (&& and || operators is available):

python matrix_table_consumer/vcf_tools.py -filter \
    -o ./data/test_1.vcf \
    -vcf ./data/ALL.chr1.phase3_shapeit2_mvncall_integrated_v5b.20130502.genotypes.vcf.gz \
    -i "(QUAL>=90 && AF>=0.00001) || AF>=0.001" \
    -gzip \
    -num_cpu 7
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