BuDDI analysis of sciplex3 data

In this zipped folder are two folders: <b>data</b> and <b>results</b><br>The sciplex data used in all of the sciplex3 analyses were downloaded from https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM4150378, presented in this paper: DOI: 10.1126/science.aax6234<br><b>data</b><b>data</b> contains one subfolders: <b>single_cell_data</b><b>single_cell_data</b> has the processed single-cell data and the generated pseudobulks used by BuDDI. Within this folder,<br><b>augmented_sciplex_data</b> contains the pseudobulks<b>cibersort_sciplex</b> contains the CIBERSORTx results<b>sciplex</b><b> </b>contains the processed sciplex data<b>results</b>This folder contains several results folders. Each one is specific to an experiment and a model. The naming convention is "model_CellLine". Each model learns all the drug embeddings together.<br><b>buddiM2</b>: the BuDDI model<br><b>bp</b>: BayesPrism<br><b>CVAE</b>: conditional Variational Autoencoder<br><b>PCA</b>: principal components analysis