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cross_system_integration

cuimc-nyp_covid_autopsy_lung

data

Data shared by Martin-Villalba-lab at DKFZ, Heidelberg, Germany

dittoseq

Color blindness friendly visualization of single-cell and bulk RNA-sequencing data

doubletfinder

R package for detecting doublets in single-cell RNA sequencing data

dynamic-of-cancer-stem-like-cells-during-cholangiocarcinoma-progression-

Dynamic-of-cancer-stem-like-cells-during-cholangiocarcinoma-progression-

dynamo_artista

Axolotl Regenerative Telencehpalon Interpretation via Spatiotemporal Transcriptomic Atlas

ebook-gpt-translator

Enjoy reading with your favorite style.

ecotyper

EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.

eosinophils_scrnaseq

Codes for analyses in the titled "Active eosinophils regulate host defense and immune responses during intestinal inflammation"

epianeufinder

R package to detect breakpoints and assign somies to scATAC-seq data

escape

Easy single cell analysis platform for enrichment

fateid

R package for the inference of cell fate bias from single-cell RNA-seq data.

fibroblastanalysis_2023

Python and R code used to produce the analysis in Almet et al. (2023), "Fibroblasts evolve in single-cell state to drive extracellular matrix and signaling changes across wound healing."

fire

genesorter

Feature Ranking in (possibly large) Clustered Single Cell Data

geo

geo-datasets

Scripts for preparing datasets in GeoQuery

ggplot2

An implementation of the Grammar of Graphics in R

graduation-thesis

The project documents the relevant data results and analysis procedures for the graduation thesis

gut_lineage

Non-canonical Wnt/PCP signalling regulates intestinal stem cell lineage priming towards enteroendocrine and Paneth cell fates

gwot

Global Waddington-OT

harmony

Fast, sensitive and accurate integration of single-cell data with Harmony

hcc_stem_scrnaseq

Lineage tracing and single-cell analysis reveal proliferative Prom1+ tumour-propagating cells and their dynamic cellular transition during liver cancer progression

heatmaply

Interactive Heat Maps for R Using plotly

hgg-oncohistones

Analysis for "K27M in canonical and noncanonical H3 variants occurs in distinct oligodendroglial cell lineages in brain midline gliomas" (Jessa et al, Nature Genetics, 2022)

hrca-reproducibility

Scripts related to the Human Retina Cell Atlas (Chen / Theis labs).

human_endoderm_atlas

human_macrophage_project

scripts for analyzing data of macrophage development in human

humanbreastcellatlas

Repository for codes for the HBCA paper