How to convert files to ADAM format?

Question

I would like to convert BAM and VCF files to ADAM format.

How do I do that?

score 2 · Accepted Answer · answered Jun 28 '18 at 01:40

2

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

answered Jun 28 '18 at 01:40

Jon Deaton

Could you provide a link to the package? It seems like it is this repository but I'm not sure. – llrs Jun 28 '18 at 07:07

1 Answers1