.github

agerer2021_covid_epitopes

Code repository accompanying the paper by Agerer et al. (2021), Sci. Immunol.

cancerbits

Wrapper and helper functions commonly used by the Developmental Cancer Genomics group at St. Anna Children's Cancer Research Institute

cancerbits.github.io

Lab website.

cellxgene_data_examples

cnn_graph

Convolutional Neural Networks on Graphs with Fast Localized Spectral Filtering

convertainer

Docker containers + scripts for file conversions.

delegate

Wrapper and helper functions to use bulk RNA-seq differential expression methods with single-cell data

keras-gcn

Keras implementation of Graph Convolutional Networks

kirchberger_shoeb2024_neut

Code repository accompanying the paper by Kirchberger, Shoeb, et al. (2024), Nat. Commun.

kostelbal2023_nfatc1

R code used for the analysis of single-cell RNA-seq data presented in Köstel Bal et al., Blood, 2023

lch_hierarchy

Code for Epigenomics and Single-cell Sequencing Define a Developmental Hierarchy in Langerhans Cell Histiocytosis (Halbritter, Farlik, et al. 2019 Cancer Discov.)

nucpipe

saldana_montano2024_ncnb

Code repository accompanying the paper by Saldana & Montano et al. (2024), Nat. Commun.

santini2021_imprints

Code repository accompanying the paper by Santini, Halbritter, et al. (2021), Nat. Commun.

scde_benchmark

Benchmark study for single-cell single-sample differential expression pipelines

shahin2021_ikzf2

Code repository accompanying the paper by Shahin et al. (2021), Sci. Immunol.

shahin2021_ikzf2_het

Code repository accompanying the paper by Shahin et al. (2021), Blood Adv

slice

A method for calculating single cell entropy and reconstructing cell differentiation lineage using single-cell RNA-seq data

vitessce_data_examples

Examples and instructions for configuring vitessce for Seurat objects.