Spotless, a reproducible pipeline for benchmarking cell type deconvolution in spatial transcriptomics.

Spatial transcriptomics (ST) technologies allow the profiling of the transcriptome of cells while keeping their spatial context. Since most commercial untargeted ST technologies do not yet operate at single-cell resolution, computational methods such as deconvolution are often used to infer the cell type composition of each sequenced spot. We benchmarked 11 deconvolution methods using 63 silver standards, 3 gold standards, and 2 case studies on liver and melanoma tissues.

Development of a novel and rapid phenotype-based screening method to assess rice seedling growth.

Background: Rice () is one of the most important model crops in plant research. Despite its considerable advantages, (phenotypic) bioassays for rice are not as well developed as for . Here, we present a phenotype-based screening method to study shoot-related parameters of rice seedlings via an automated computer analysis.