az7jh2/SDePER: SDePER v1.2.0

Updates:

• Revised the cvae module, implementing several updates including (#4):

  • Integration of Batch Normalization into the CVAE training process.

  • Inclusion of a logarithmic transformation in the preprocessing of gene expression data for CVAE input.

  • Generation of "pseudo-spots" under spatial conditions through the random combination of spatial spots.

  • Addition of two command-line options: --n_pseudo_spot and --num_hidden_layer. Also adjusted the default value of --cvae_init_lr.

• Relocated all code related to generating diagnostic figures to a new module, diagnosis_plots. Additionally organized the output figures into a folder named diagnosis within the output path (#6).