converting cram to ubam
How can I convert a cram to an unmapped bam file with samtools?
samtools view -b -T ref.fasta input.cram > output.bam
is this correct?
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joe_genome •
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samtools collate -O -u input.cram | \
samtools reset -O BAM -o out.bam
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Pierre Lindenbaum
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I'm curious - why do you want to do this? Are you submitting reads from your on premises CRAM archive to something like GEO or SRA?
Correct this is what I'm doing