JHu

How to run the pipeline with Smartseq2 raw data? The current MAESTRO Website did not provide it.

kmeans centers not distinct

7

I receive the same error with #26 , however, it does not work when manually set ncenter = 100, 50 or 10, and actually the the number of the cells...

Data format for bulk RNA-seq with 10X UMI data as reference: counts, TPM or PFKM?

3

Hi, After reading the tutorials carefully, I still feel confused how to prepare the input data. In most cases, users want to get cell-type fractions from tumor bulk RNA-seq data...

How to perform perturbation prediction with 10X tissue dataset?

5

Dear team, Thanks a lot for providing scGPT for biological researchers. You provide a tutorial for perturbation prediction using Adamson or Norman's datasets. However, I am still confused about how...