Explore @Teichlab Open Source projects

Teichmann Group (@Teichlab)

Teichlab

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Registered almost 9 years ago
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Location 🇬🇧 United Kingdom
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Jupyter Notebook
64

HTML
96

R
163

Python
207

Shell
1,163

scg_lib_structs

Collections of library structure and sequence of popular single cell genomic methods

cellphonedb

celltypist

A tool for semi-automatic cell type classification

bbknn

Batch balanced KNN

SpatialDE

Test genes for Spatial Variation

Jupyter Notebook

tracer

TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data

cellhint

A tool for semi-automatic cell type harmonization and integration

MultiMAP

MultiMAP for integration of single cell multi-omics

embl-single-cell-course-2016

Material for lecture at the EMBL Single Cell Course 2016

Jupyter Notebook

drug2cell

Gene group activity utility functions for Scanpy

Jupyter Notebook

bracer

BraCeR - reconstruction of B cell receptor sequences from single-cell RNAseq data

cellity

Pan_fetal_immune

Collection of scripts for analysis of pan fetal immune atlas

Jupyter Notebook

celloline

GPfates

sctk

Genes2Genes

Aligning transcriptomic trajectories of single-cell reference and query systems

Jupyter Notebook

HCA_Heart_ver2

Jupyter Notebook

covid19_MS1

Analysis notebooks for "SARS-CoV-2 entry factors are highly expressed in nasal epithelial cells together with innate immune genes".

Jupyter Notebook

visium_stitcher

Stitch multiple Visium slides together

Jupyter Notebook

innate_evo

limbcellatlas

This repository contains codes used for the human fetal limb cell atlas.

Jupyter Notebook

celltypist_wiki

Materials and scripts for building cell type encyclopedia table

thymusatlas

Jupyter Notebook

KIRid

readquant

Convenience package for parsing RNA-seq quantification results

RCA

Residual Component Analysis

Jupyter Notebook

spectrum-of-differentiation-supplements

Mirror of analysis files for "Single-Cell RNA-Sequencing Reveals a Continuous Spectrum of Differentiation in Hematopoietic Cells"

Jupyter Notebook

NaiveDE

The most trivial DE test based on likelihood ratio tests

TissueImmuneCellAtlas

Jupyter Notebook

TissueTag

Python package to interactively annotate histological images within a jupyter notebook

Jupyter Notebook

SpaceTimeGut

Analysis of scRNA-seq and V(D)J data of almost half a million cells from up to five anatomical regions in the developing and up to eleven distinct anatomical regions in healthy pediatric and adult human gut.

Jupyter Notebook

scrnatb

Single Cell RNA-Seq analysis toolbox for Python

cellphonedb-data

basespace_fq_downloader

A fastq downloader from basespace that actually works.

basecloud

Base R/python/etc. internal OpenStack cloud setup for Teichlab

rbcde

Rank-biserial correlation coefficient for big data marker detection

snp2cell

cell type specific, trait-associated gene regulation

thymus_spatial_atlas

general repo that holds all analysis and figures for the thymus spatial atlas by Yayon, Kedlian, Boehme, Radtke and many more!

Jupyter Notebook

mapcloud

10X/SS2/spatial transcriptomics/genotyping internal cloud pipeline

cell2tcr

Inference of TCR motifs

Jupyter Notebook

COVID-19paed

lung-immune-cell-atlas

This is a folder containing information of the human fetal lung leukocyte atlas

power-analysis-material

Jupyter Notebook

covid19_oral

Jupyter Notebook

starters

Computational setup checklist for new starters

G2G_notebooks

Analysis notebooks for G2G MS

Jupyter Notebook

bbknn_preprint

Archival notebooks from the BBKNN preprint, removed from the paper

Jupyter Notebook

sctkr

A deposit of functions that perform common tasks for single cell analysis

iss_patcher

Approximate missing features from higher dimensionality data neighbours

Jupyter Notebook