Ecosyste.ms: Awesome

https://github.com/theislab/single-cell-tutorial

Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"

Last synced: 15 Oct 2024

https://github.com/theislab/single-cell-best-practices

https://www.sc-best-practices.org

book rna-seq single-cell tutorial

Last synced: 02 Aug 2024

https://github.com/theislab/cellrank

CellRank: dynamics from multi-view single-cell data

bioinformatics cell-fate-determination cell-fate-transitions data-science fuzzy-clustering-analyses genetics machine-learning manifold-learning markov-chains rna-velocity single-cell-genomics single-cell-rna-seq trajectory-generation

Last synced: 02 Aug 2024

https://github.com/theislab/scarches

Reference mapping for single-cell genomics

batch-correction data-integration deep-learning human-cell-atlas multimodal-deep-learning multiomics rna-seq-analysis scrna-seq single-cell single-cell-genomics

Last synced: 08 Aug 2024

https://github.com/theislab/anndata2ri

Convert between AnnData and SingleCellExperiment

bioconductor jupyter rpy2 scanpy single-cell

Last synced: 15 Oct 2024

https://github.com/theislab/ncem

Learning cell communication from spatial graphs of cells

cell-cell-communication cell-cell-interaction cvae encoder-decoder-model glm gnn scanpy squidpy tensorflow

Last synced: 02 Aug 2024

https://github.com/theislab/graphcompass

GraphCompass: Graph Comparison Tools for Differential Analyses in Spatial Systems

Last synced: 15 Oct 2024

https://github.com/theislab/kbranches

Finding branching events and tips in single cell differentiation trajectories

Last synced: 06 Nov 2024