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Documentation for Variant Tools.
https://vatlab.github.io/vat/
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Documentation: Phenotype #13

Closed BingLi17 closed 6 years ago

BingLi17 commented 6 years ago 
2.3  New columns based on sample genotype and genotype information

Examples: Phenotype calculated from statistics of genotype info fields

vtools phenotype --from_stat "meanDP=avg(DP_geno)" "minDP=min(DP_geno)" "maxDP=max(DP_geno)"

The value for meanDP is not the same for hdf5 version, will fix later.

2.4  Output selected phenotypes using option --output

Examples: Output specified phenotypes

% vtools phenotype --output sample_name sample_wildtype BMI

sample_wildtype doesn't exist.

jma7 commented 6 years ago

Document is updated using new data.