In version 4, the Seurat documentation was transitioned to pkgdown. Here we provide access to all previous versions of the documentation.

Version 2-4 tutorials

PBMC scATAC-seq Vignette

v4.3v3.2v3.1v3.0

Cell-Cycle Scoring and Regression

v4.3v3.2v3.1v3.0v2.4

Interoperability between single-cell object formats

v4.3v4.3v3.2v3.1v3.0v2.4

Differential expression testing

v4.3v3.2v3.1v3.0v2.4

Seurat - Dimensional Reduction Vignette

v4.3v3.2v3.1v3.0v2.4

Parallelization in Seurat with future

v4.3v3.2v3.1v3.0

Demultiplexing with hashtag oligos (HTOs)

v4.3v3.2v3.1v3.0v2.4

Tutorial: Integrating stimulated vs. control PBMC datasets to learn cell- type specific responses

v3.2v3.1v3.0v2.4

Integration and Label Transfer

v3.2v3.1v3.0

Mapping and annotating query datasets

v4.3

Tips for integrating large datasets

v4.3

Fast integration using reciprocal PCA (RPCA)

v4.3

Seurat - Interaction Tips

v4.3v3.2v3.1v3.0v2.4

Guided Clustering of the Microwell-seq Mouse Cell Atlas

v3.2v3.1v3.0v2.4

Seurat - Combining Two 10X Runs

v4.3

Mixscape Vignette

v4.3v3.2v3.1

Multimodal reference mapping

v4.3

Using Seurat with multi-modal data

v4.3v3.2v3.1v3.0v2.4

Guided tutorial — 2,700 PBMCs

v4.3v3.2v3.1v3.0v2.4v1.4

Using sctransform in Seurat

v4.3v3.2v3.1v3.0

SCTransform v2

v4.3

Analysis, visualization, and integration of spatial datasets with Seurat

v4.3v3.2

New data visualization methods in v3.0

v4.3v3.2v3.1v3.0v2.4

Weighted Nearest Neighbor Analysis

v4.3

Version 1.3-1.4 tutorials

For versions 1.3-1.4, we provide access to the old documentation pages here

Version <=1.2 tutorials

For versions <=1.2, we provide access to the old documentation pages here