Theis Lab

Institute of Computational Biology

Munich

Pinned Repositories

cellrank
CellRank: dynamics from multi-view single-cell data
Language:Python375 8 73448
dca
Deep count autoencoder for denoising scRNA-seq data
Language:Python254 10 6070
ehrapy
Electronic Health Record Analysis with Python.
Language:Python281 4 34524
scarches
Reference mapping for single-cell genomics
Language:Jupyter Notebook358 11 17956
scgen
Single cell perturbation prediction
Language:Python285 8 8058
scib
Benchmarking analysis of data integration tools
Language:Python340 12 18866
scvelo
RNA Velocity generalized through dynamical modeling
Language:Python433 12 810105
single-cell-best-practices
https://www.sc-best-practices.org
Language:Jupyter Notebook866 17 209206
single-cell-transformer-papers
Language:HTML303 13 5837
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"
Language:Jupyter Notebook1.5k 44 101472

Theis Lab's Repositories

theislab/single-cell-best-practices
https://www.sc-best-practices.org
Language:Jupyter Notebook866 17 209206
theislab/scvelo
RNA Velocity generalized through dynamical modeling
Language:Python433 12 810105
theislab/cellrank
CellRank: dynamics from multi-view single-cell data
Language:Python375 8 73448
theislab/scarches
Reference mapping for single-cell genomics
Language:Jupyter Notebook358 11 17956
theislab/single-cell-transformer-papers
Language:HTML303 13 5837
theislab/ehrapy
Electronic Health Record Analysis with Python.
Language:Python281 4 34524
theislab/diffxpy
Differential expression analysis for single-cell RNA-seq data.
Language:Python196 7 18823
theislab/zellkonverter
Conversion between scRNA-seq objects
Language:R166 5 10428
theislab/moscot
Multi-omic single-cell optimal transport tools
Language:Python146 3 37310
theislab/anndata2ri
Convert between AnnData and SingleCellExperiment
Language:Python132 7 8719
theislab/chemCPA
Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.
Language:Jupyter Notebook111 3 10326
theislab/DRVI
Unsupervised Deep Disentangled Representation of Single-Cell Omics
Language:Python38 1 53
theislab/prophet
Language:Python29 3 52
theislab/multigrate
Multigrate: multiomic data integration for single-cell genomics
Language:Python20 1 126
theislab/scanpydoc
Collection of Sphinx extensions similar to (but more flexible than) numpydoc
Language:Python12 5 376
theislab/CFGen
Language:Python10 1 25
theislab/ehrapy-tutorials
Tutorials for ehrapy
Language:Jupyter Notebook9 3 82
theislab/jump-cpg0016-segmentation
Snakemake pipeline used to segment the cpg0016 dataset of the JUMP-Cell Painting Consortium
Language:Jupyter Notebook8 1 1
theislab/moscot_notebooks
Analysis notebooks using the moscot package
Language:Jupyter Notebook8 1 214
theislab/ehrdata
A datastructure for EHR data
Language:Python5 2 351
theislab/archmap
Language:JavaScript4 2 430
theislab/cell_flow_perturbation
Modeling complex perturbations with CellFlow
Language:Python41
theislab/gh-dashboard
A dashboard of everything in the theislab GitHub repository
Language:HTML3 2 0
theislab/pertpy-reproducibility
Language:Jupyter Notebook3 2 61
theislab/archmap_data
Language:Python1 0 10
theislab/MS_mv_modelling
A deep generative model for single-cell MS proteomics data
Language:Jupyter Notebook1 2 41
theislab/spatialdata-db
Language:Jupyter Notebook1 1 26
theislab/archmap_doc
Language:Python0 3 00
theislab/deconvATAC
Language:Jupyter Notebook1 0
theislab/inVAE_reproducibility
Language:Jupyter Notebook