SOMA

Docker — container platform for building, running, and distributing reproducible bioinformatics environments. Provides Dockerfile authoring, image management, container execution with volume mounts fo

1 shared topic • 2 shared operations

Geneformer — transformer-based foundation model pretrained on ~30 million single-cell transcriptomes for context-specific gene network analysis. Supports fine-tuning for cell type classification, gene

1 shared topic • 2 shared operations

PyTorch — open-source deep learning framework for building and training neural networks in biology and life sciences. Provides tensor computation with GPU acceleration, automatic differentiation (auto

1 shared topic • 2 shared operations

scFoundation — large-scale pretrained foundation model for single-cell transcriptomics built on the xTrimo transformer architecture. Trained on ~50 million human single-cell profiles, scFoundation gen

1 shared topic • 2 shared operations

Vireo (vireoSNP) is a Bayesian variational inference tool for donor demultiplexing in pooled single-cell RNA-seq and single-cell ATAC-seq experiments. It assigns cells to donors using SNP genotype inf

1 shared topic • 2 shared operations