ST Spot Detector: a web-based application for automatic spot and tissue detection for spatial Transcriptomics image datasets.

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Wong K, Navarro JF, Bergenstråhle L, Ståhl PL, Lundeberg J

Bioinformatics 34 (11) 1966-1968 [2018-06-01; online 2018-01-24]

Spatial Transcriptomics (ST) is a method which combines high resolution tissue imaging with high troughput transcriptome sequencing data. This data must be aligned with the images for correct visualization, a process that involves several manual steps. Here we present ST Spot Detector, a web tool that automates and facilitates this alignment through a user friendly interface. jose.fernandez.navarro@scilifelab.se. Supplementary data are available at Bioinformatics online.

Affiliated researcher

PubMed 29360929

DOI 10.1093/bioinformatics/bty030

Crossref 10.1093/bioinformatics/bty030

pii: 4816795