Journal
NATURE METHODS
Volume 15, Issue 5, Pages 339-+Publisher
NATURE PORTFOLIO
DOI: 10.1038/nmeth.4634
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Funding
- Swedish Research Council [2017-01062]
- European Research Council [648842]
- Bert L. and N. Kuggie Vallee Foundation
- Swedish Research Council [2017-01062] Funding Source: Swedish Research Council
- European Research Council (ERC) [648842] Funding Source: European Research Council (ERC)
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As methods for measuring spatial gene expression at single-cell resolution become available, there is a need for computational analysis strategies. We present trendsceek, a method based on marked point processes that identifies genes with statistically significant spatial expression trends. trendsceek finds these genes in spatial transcriptomic and sequential fluorescence in situ hybridization data, and also reveals significant gene expression gradients and hot spots in low-dimensional projections of dissociated single-cell RNA-seq data.
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