Digital Cell Sorter (DCS): single cell RNA-seq analysis toolkit. Documentation:
Detecting and dissecting anomalous anatomic regions in spatial transcriptomics with STANDS
A similarity-assisted variational autoencoder (saVAE) is a new method that adopts similarity information in the framework of the VAE.
Batman: Batch effect correction via minimum weight MAtchiNg
A Python tool for performing downstream analysis on Single-Cell RNA-seq datasets
Batch Effect Correction framework for metagenomic data
Machine learning framework for aging analysis in Drosophila single-cell RNA-seq data. Deep learning models with SHAP interpretability, batch correction, and comprehensive research workflows.
Detecting and subtyping anomalous single cells with M2ASDA
Adversarial autoencoder for bulk RNA‑seq batch effect correction that removes batch signal while preserving biological variation, outputting a corrected logCPM matrix and latent embeddings with optional supervised label preservation.
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