I would like to convert BAM and VCF files to ADAM format.
How do I do that?
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These transformations are quite simple with the adam-submit script packaged with ADAM.
Transformation of BAM files
adam-submit -- transformAlignments sample.bam sample.alignments.adam
Transformation of VCF files
adam-submit -- transformVariants sample.vcf.gz sample.variants.adam
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$\begingroup$ Could you provide a link to the package? It seems like it is this repository but I'm not sure. $\endgroup$– llrsJun 28, 2018 at 7:07