Teichmann Group

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73 repositories

PanGIAtlas
Public
Integration of gut cell atlases
Jupyter Notebook
•
GNU General Public License v3.0
•7•28•2•0•Updated Oct 29, 2025Oct 29, 2025
bin2cell
Public
Join subcellular Visium HD bins into cells
Jupyter Notebook
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MIT License
•12•127•6•0•Updated Oct 23, 2025Oct 23, 2025
csd3-scripts
Public
Various utility scripts for CSD3 survival
Python
•0•0•0•0•Updated Oct 20, 2025Oct 20, 2025
TissueTag
Public
Python package to interactively annotate histological images within a jupyter notebook
Jupyter Notebook
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BSD 3-Clause "New" or "Revised" License
•2•17•1•0•Updated Oct 20, 2025Oct 20, 2025
visium_stitcher
Public
Stitch multiple Visium slides together
Jupyter Notebook
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MIT License
•1•16•1•0•Updated Oct 16, 2025Oct 16, 2025
celltypist
Public
A tool for semi-automatic cell type classification
python machine-learning scrna-seq single-cell cell-type-classification label-transfer
Python
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MIT License
•50•416•41•2•Updated Oct 16, 2025Oct 16, 2025
bracer
Public
BraCeR - reconstruction of B cell receptor sequences from single-cell RNAseq data
Python
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Other
•23•42•17•2•Updated Oct 15, 2025Oct 15, 2025
celltypist_wiki
Public
Materials and scripts for building cell type encyclopedia table
Python
•3•20•0•0•Updated Oct 15, 2025Oct 15, 2025
ega-meta-harvest
Public
Gather EGAF-EGAN-EGAX metadata for EGA data released from Sanger
Python
•0•0•0•0•Updated Oct 1, 2025Oct 1, 2025
TissueTypist
Public
Jupyter Notebook
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MIT License
•0•0•0•0•Updated Sep 3, 2025Sep 3, 2025
Developing_heart_atlas
Public
Jupyter Notebook
•0•3•0•0•Updated Aug 29, 2025Aug 29, 2025
celcomen
Public
Jupyter Notebook
•0•16•0•0•Updated Aug 20, 2025Aug 20, 2025
sctk
Public
Python
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GNU General Public License v3.0
•8•41•2•1•Updated Aug 13, 2025Aug 13, 2025
Genes2Genes
Public
Aligning gene expression trajectories of single-cell reference and query systems
python scrna-seq dynamic-programming bayesian-inference single-cell human-cell-atlas pseudotime-trajectory trajectory-alignment minimum-message-length
Jupyter Notebook
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MIT License
•9•76•8•2•Updated Aug 10, 2025Aug 10, 2025
cellregulondb
Public
CellRegulon database code
Python
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MIT License
•0•3•1•0•Updated Jul 25, 2025Jul 25, 2025
skeletal_dev_atlas
Public
Jupyter Notebook
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BSD 2-Clause "Simplified" License
•2•6•2•0•Updated Jul 11, 2025Jul 11, 2025
cell2tcr
Public
Inference of TCR motifs
Jupyter Notebook
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Other
•3•32•2•0•Updated Jun 17, 2025Jun 17, 2025
crohns-fibroblast-atlas
Public
Jupyter Notebook
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MIT License
•1•1•0•0•Updated Jun 15, 2025Jun 15, 2025
scg_lib_structs
Public
Collections of library structure and sequence of popular single cell genomic methods
HTML
•101•483•2•0•Updated May 19, 2025May 19, 2025
ThyAge-Clock
Public
MIT License
•0•0•0•0•Updated Apr 16, 2025Apr 16, 2025
snp2cell
Public
cell type specific, trait-associated gene regulation
Python
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BSD 3-Clause "New" or "Revised" License
•0•29•0•0•Updated Mar 31, 2025Mar 31, 2025
cellhint
Public
A tool for semi-automatic cell type harmonization and integration
python machine-learning scrna-seq data-integration single-cell cell-type-harmonization
Python
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MIT License
•15•111•6•0•Updated Mar 23, 2025Mar 23, 2025
limbcellatlas
Public
This repository contains codes used for the human fetal limb cell atlas.
Jupyter Notebook
•6•17•0•0•Updated Jan 28, 2025Jan 28, 2025
drug2cell
Public
Gene group activity utility functions for Scanpy
Jupyter Notebook
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Other
•4•93•7•0•Updated Dec 21, 2024Dec 21, 2024
vascular_atlas
Public
Repo with analysis code for the vascular atlas paper
Jupyter Notebook
•5•9•0•0•Updated Nov 22, 2024Nov 22, 2024
thymus_spatial_atlas
Public
general repo that holds all analysis and figures for the thymus spatial atlas by Yayon, Kedlian, Boehme, Radtke and many more!
genomics human immunology single-cell thymus bioinformatics-tool spatial-transcriptomics common-coordinate-framwork
Jupyter Notebook
•1•11•2•0•Updated Nov 20, 2024Nov 20, 2024
gene2probe
Public
Pipeline for designing custom probes against human genes
Jupyter Notebook
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MIT License
•5•18•0•1•Updated Nov 11, 2024Nov 11, 2024
lung-immune-cell-atlas
Public
This is a folder containing information of the human fetal lung leukocyte atlas
HTML
•2•1•0•0•Updated Nov 7, 2024Nov 7, 2024
G2G_notebooks
Public
Analysis notebooks for G2G MS
Jupyter Notebook
•0•7•0•0•Updated Oct 7, 2024Oct 7, 2024
ALI_COVID19
Public
Repo with analysis code for the ALI_COVID19 paper
Jupyter Notebook
•1•5•1•0•Updated Aug 2, 2024Aug 2, 2024