Additional Resources

The workshop itself — lectures, readings, tutorials, and Talapas scripts — lives on the Materials page, and quick one-page references are on the Cheat Sheets tab. Everything that supports the workshop is gathered here. Each section below is a gateway to a dedicated page:

Glossary

A working glossary of single-cell terminology — QC metrics, embeddings, integration, DE/DA, ATAC, spatial, and FAIR terms. Keep it open alongside the lectures; the chapters link into it whenever a term first appears.

Workshop Reference Material

The workshop’s own reference library: the prerequisite appendices (A–G — single-cell biology, statistics, shell scripting, Git, databases, file formats, and a methods-section template) that the module chapters cite into.

External Tutorials & Communities

Living best-practices books (sc-best-practices, OSCA), framework documentation (Seurat, Scanpy, Signac, squidpy), and the communities and courses where you can ask questions and keep learning.

Key Papers, Reviews & Benchmarks

A curated reading list — the cross-cutting foundational papers plus reviews and head-to-head benchmarks organized by module topic, so you can find the right paper when you need to choose a method rather than learn one.

Bibliography

The full set of citations for the entire website — every paper, review, benchmark, and software reference used anywhere across the workshop, collected and alphabetized in one place.

Public Datasets

External public scRNA-seq, scATAC, and spatial datasets — 10x Genomics, Tabula Sapiens/Muris, the Human Cell Atlas, GEO, and CELLxGENE Discover — useful for practice, reanalysis, and integration with your own work.