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Add additional checks to make sure all variants in the scoring file have been calculated on the samples. Currently this check is only for test data, but it should run on real data to ensure the SUMs are always directly comparable across datasets). Related to #139
Check .sscore.vars against scoring file variants to ensure that they have been calculated correctly.
Update test profile to require scoring file combination and deduplication.
The text was updated successfully, but these errors were encountered:
Does "score correlation tests" refer to something like a heatmap? It would be nice to see one as standard in the HTML report.
This plot tell us whether newer PGS are genuinely novel or are more of the same and of dubious value.
Does "score correlation tests" refer to something like a heatmap? It would be nice to see one as standard in the HTML report. This plot tell us whether newer PGS are genuinely novel or are more of the same and of dubious value.
No, this seems too related to custom analyses and not general use of the pipeline. It's also trivial to do by reading in the pgs file, pivoting wide, and running cor in R.
Description of feature
Add additional checks to make sure all variants in the scoring file have been calculated on the samples. Currently this check is only for test data, but it should run on real data to ensure the SUMs are always directly comparable across datasets). Related to #139
The text was updated successfully, but these errors were encountered: