Difference between revisions of "Raremetal Incoming updates"
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* [[RAREMETAL_Change_Log | RAREMETAL Change log]] | * [[RAREMETAL_Change_Log | RAREMETAL Change log]] | ||
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==Incoming update== | ==Incoming update== | ||
Revision as of 15:07, 27 November 2016
Main Wiki Page
Incoming update
- Add an option to store group file from vcf
- Take snpeff as annotation input
- When no conditional variant is available, warning is generated but not written to log file.
- SKAT conditional analysis misses the last 3 column names. They should be cond_statistics, cond_pvalue_davis, cond_p_value_liu.
- enable reading from .gz annotated vcf
- add SKAT-O
- solve the numeric issue of lambda = 0 in SKAT
- In conditional analysis, when cov matrix between the test variant and its conditioned variants is not invertible, MathSVD still tries to invert that matrix and that leads to weird conditional p values.
- Optimization for binary traits
- Memory optimization for gene-based test in large panel
