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Data Analysis and Atlassing

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kBET

kBET graphic
A test metric for assessing single-cell RNA-seq batch correction

A test metric for assessing single-cell RNA-seq batch correction

Büttner et al. (Nature Methods, 2018)

kBET is a user-friendly, robust and sensitive k-nearest-neighbor test for the quantification of batch effects.

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Single-cell integration benchmark

Single-cell integration benchmark
Benchmarking atlas-level data integration in single-cell genomics

Benchmarking atlas-level data integration in single-cell genomics

Lücken et al. (Nature Methods, 2021)

We provide a benchmark of 68 combinations of single-cell integration and preprocessing methods applied to 85 technical batches of gene expression, chromatin accessibility and simulation data from 23 publications, altogether representing >1.2 million cells distributed in 13 atlas-level integration tasks.

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Human Lung Cell Atlas (HLCA)

Human Lung Cell Atlas
Human Lung Cell Atlas

An integrated cell atlas of the human lung in health and disease

Sikkema et al. (biorXiv, 2022)

The integrated Human Lung Cell Atlas (HLCA) combines 46 datasets of the human respiratory system into a single atlas spanning 2.2 million cells from 444 individuals across health and disease.

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