WebSummary: SpatialExperiment is a new data infrastructure for storing and accessing spatially resolved transcriptomics data, implemented within the R/Bioconductor framework, which provides advantages of modularity, interoperability, standardized operations, and comprehensive documentation. Here, we demonstrate the structure and user interface … WebCollection of Visium spatial gene expression datasets by 10X Genomics, formatted into objects of class SpatialExperiment. Data cover various organisms and tissues, and include: single- and multi-section experiments, as well as single sections subjected to both whole transcriptome and targeted panel analysis. Datasets may be used for testing of and as …
SpatialExperiment: infrastructure for spatially-resolved ...
WebApr 28, 2024 · TENxVisiumData. Helena L. Crowell 1. 1 Department of Molecular Life Sciences, University of Zurich, Zurich, Switzerland. 28 April 2024 Abstract The TENxVisiumData ExperimentHub package provides a collection of Visium spatial gene expression datasets by 10X Genomics. Data cover various organisms and tissues, and … WebVarious R programming tools for data manipulation, including: - medical unit conversions ('ConvertMedUnits', 'MedUnits'), - combining objects ('bindData', 'cbindX ... par towing illinois
Deconvolution of mixture using single-cell data — SPOTlight
WebOct 30, 2024 · TENxVisiumData. Helena L. Crowell 1. 1 Department of Molecular Life Sciences, University of Zurich, Zurich, Switzerland. 30 October 2024 Abstract The … WebSpatialExperiment is extendable to alternative technological platforms measuring expression and to new types of data modalities, such as spatial immunofluorescence or proteomics, in the future. We also provide access to example datasets and visualization tools in the STexampleData, TENxVisiumData, and ggspavis packages. WebApr 28, 2024 · In addition, we provide the associated data packages STexampleData (example datasets from several platforms) and TENxVisiumData (publicly available Visium datasets provided by 10x Genomics), and the ggspavis package providing visualization functions designed for SpatialExperiment objects (Supplementary Fig. S1 and … par towing jellico tn