A comparison of automatic cell identification methods for single-cell RNA sequencing data.

Tamim AbdelaalLieke MichielsenDavy CatsDylan HoogduinHailiang MeiMarcel J T ReindersAhmed Mahfouz

Published in: Genome biology (2019)

We present a comprehensive evaluation of automatic cell identification methods for single-cell RNA sequencing data. All the code used for the evaluation is available on GitHub ( https://github.com/tabdelaal/scRNAseq_Benchmark ). Additionally, we provide a Snakemake workflow to facilitate the benchmarking and to support the extension of new methods and new datasets.

Keyphrases

single cell
rna seq
high throughput
electronic health record
deep learning
big data
artificial intelligence
bone marrow
neural network