Interpretation of Prediction

[uddamvathanak]

Hi author,

I have run the tutorial to test out on GEARS model and what I found is that the output of the prediction is not a gene expression in post perturbation and instead it is just a gene vector.

May I know how to obtained the post perturbation gene expression?

Thanks.

[yhr91]

Thanks for your question. Can you share what you mean by a 'gene vector'? You could post the exact output in this thread.

GEARS outputs a vector of post-perturbation gene expression values

[uddamvathanak]

what I meant by gene vector is that the output is in the shape of (1, number of genes) instead of (number of cell, nunber of genes).

I would imagine that the output is for each cell instead like post perturbation gene expression in shape of (cell, gene)

Is my answer clear enough?

Thanks :D

[yhr91]

Thanks for your question. The response should be in the shape of (number of perturbation categories, number of genes). This is because GEARS predicts the average perturbation effects for a specific perturbation category and does not predict perturbation effects at the level of individual cells.

[uddamvathanak]

Thanks it clear my doubt. Cheer :D