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This repository contains the R code used to generate a gif animation for a fundraising presentation for ovarian cancer research. The purpose of the animation is to captivate audiences with the remarkable capabilities of genomics sequencing technology. The animation is crafted using gganimate and comprises a series of ggplots. The tissue image and projections are derived from 10X Visium spatial transcriptome data obtained from an actual endometrium sample, which serves as the basis for the animation
This animation represents a high-level overview of the workflow for 10X Visium. It commences with extracting an endometrium sample from the uterus, progresses through RNA sequencing, and incorporates a sequence analysis depicted through the PCA and t-SNE projection animation. Subsequently, the insights gained from this analysis are visually represented by colored dots on the t-SNE plot. These dots are then remapped to the tissue and the uterus, creating a dynamic and informative representation of the genomic journey.
If you wish to make a simiar gif, you can use renv.lockfile to install the required R packages and the code is located at notebook/demo_visium.Rmd.