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zhanxw / rvtests

Rare variant test software for next generation sequencing data
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output of single variant association results #4

Closed dajiangliu closed 8 years ago

dajiangliu commented 8 years ago

Hi, Xiaowei,

We noted that single variant association results are a bit over-simplified. I wonder if you could update the software to output something similar to MetaScore files. For example, it would be very useful to output test statistic, genetic effect estimate, the standard deviation of the genetic effect estimate, allele frequencies, p-values, hardy weinberg, call rate etc. Sometimes, users would like to meta-analyze the output with softwares such as METAL, where information such as SD and genetic effect estimates are needed. Thanks!

Dajiang

zhanxw commented 8 years ago

Will incorporate this suggestion. Thanks.

zhanxw commented 8 years ago

Plan to add a column (SD) in the "--meta score" output (xxx.MetaScore.assoc.gz).

zhanxw commented 8 years ago

The current github version (version 20151201) supports SE outputs now. Either in single variant score test (--single score), or in generating score statistics for meta-analysis models (use --meta score[se] to turn this on)