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Created 2013-06-20 14:08:52 | Updated | Tags:
Comments (6)

The User Guide on line at this URL
http://www.broadinstitute.org/gatk/gatkdocs/org_broadinstitute_sting_gatk_walkers_genotyper_UnifiedGenotyper.html
has this text
Example command for generating calls at all sites
...
-o my.vcf \
...
--out / -o ( VariantContextWriter with default value stdout )
File to which variants should be written. A raw, unfiltered, highly sensitive callset in VCF format.

In my hands -o my.vcf produces an error message, complaining that there is no --out
while --out my.vcf works without error

Any suggestions?


Created 2013-02-13 16:29:03 | Updated 2013-02-13 17:21:12 | Tags:
Comments (6)

Hello,

I am dissatisfied with the online "help" that GenomeAnalysis.jar supplies. Is there a downloadable PDF that I can read?

Joe White