Visium Collection

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“Spatial alignment of single cell transcriptomic data. ”

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“Code for the spatialLIBD R/Bioconductor package and shiny app”

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🔮Psychic

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“ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method in FASTQ format.”

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🔥Flame

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“Spatial Transcriptomics human DLPFC pilot study part of the spatialLIBD project”

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“DeepSpot: Deep learning model for predicting spatial transcriptomics from H&E histopathology images. Supports spot-level (Visium) and single-cell (Xenium) resolution.”

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“Pipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcriptomics.”

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🔮Psychic

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“Spatial omics in the browser for hundreds of images at once | 10x, IMC, IF, H&E, CosMX, & more | https://rakaia.io/”