Skip to content

Interpreting normalisation results #284

Answered by smlmbrt
SalemWerdyani asked this question in Q&A
Discussion options

You must be logged in to vote

The SUM is always the PGS (weighted sum of allele dosages) calculated on the matched variants. The SUM may change when you run with/without ancestry adjustment because the variants overlapping your genotypes and the reference panel might not be identical.

The other methods (Z_MostSimilarPop, percentile_MostSimilarPop, Z_norm1, or Z_norm2) are different ways for reporting a PGS with respect to genetic ancestry, you can see more information here: https://pgsc-calc.readthedocs.io/en/latest/explanation/geneticancestry.html.

Replies: 2 comments 2 replies

Comment options

You must be logged in to vote
2 replies
@ashenfernando1
Comment options

@smlmbrt
Comment options

Answer selected by smlmbrt
Comment options

You must be logged in to vote
0 replies
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Category
Q&A
Labels
None yet
3 participants