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I am interested in using GNomix for local ancestry inference on my phased WES data.
I understand that the pre-trained models used GRCh37 data for training. My data is in GRCh38.
What I'm trying to understand is whether GNomix uses any positional information for the predictions in a way that would make it dependent on a genome build? Is it necessary to retrain the model from scratch using GRCh38 reference in order to use it on my data, or can I use the pre-trained models for my GRCh38 data out of the box? Any advice is highly appreciated.
The text was updated successfully, but these errors were encountered:
I've used gnomix on hg38 aligned data before and have not had a problem. I constructed a reference panel and train the models based on the reference panel. Then I use that for local ancestry inference on the query. I hope that helps!
I am interested in using GNomix for local ancestry inference on my phased WES data.
I understand that the pre-trained models used GRCh37 data for training. My data is in GRCh38.
What I'm trying to understand is whether GNomix uses any positional information for the predictions in a way that would make it dependent on a genome build? Is it necessary to retrain the model from scratch using GRCh38 reference in order to use it on my data, or can I use the pre-trained models for my GRCh38 data out of the box? Any advice is highly appreciated.
The text was updated successfully, but these errors were encountered: