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Way to filter winnowmap2 BAM files for read lengths #20

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Musketeer-D opened this issue Jul 2, 2021 · 0 comments
Open

Way to filter winnowmap2 BAM files for read lengths #20

Musketeer-D opened this issue Jul 2, 2021 · 0 comments

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@Musketeer-D
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Could I use 'samtools view -h Winnowmap.bam | awk 'length($10) > 50000 || $1 ~ /^@/' | samtools view -bS - > 50k.bam' to get winnowmap2 BAM files filtered for read lengths greater than 50 kb?
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@Musketeer-D