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opencb / hpg-bigdata

This repository implements converters and tools for working with NGS data in HPC or Hadoop cluster
Apache License 2.0
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Add the --rename-cohort parameter to the variant metadata command line #114

Closed jtarraga closed 7 years ago

jtarraga commented 8 years ago

The variant metadata command line should allow users to rename cohorts from the variant metadata file. The expected value follows the format: dataset_name::old_name::new_name. The command line below renames the cohort "set1" to "control" of the dataset "cancer".

./build/bin/hpg-bigdata-local.sh variant metadata --i test.vcf.avro --rename-cohort cancer::set1::control