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Hello, How can I get a copy of the RData that you use in the Spatial vignette?
https://github.com/jinworks/CellChat/blob/main/tutorial/CellChat_analysis_of_spatial_transcriptomics_data.Rmd#L68
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Hi,
I am working with plant species, and lately I have been trying to use scevelo to infer the cell transition state for the annotated cell types. Scevelo gave very nice result with clear and strong …
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Trying to use BPCells to help with smoother analysis of Visium HD data but keep getting errors.
localdir visium_data
> # Convert to BPCells format
> expr_matrix expr_matrix_int
> write_ma…
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Hi all! In a couple of weeks, I'd like to follow up Jamie's recent **R spatial workshop** with round 2, in which we will focus on manipulating vector spatial objects, especially polygons and shapefil…
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Feedback from Ilona sent in an email Oct 1, 2024
C2aii: Physiological thermal nichec (PTN)
• This can be assessed using a mapped layer, or not. Correct?
• What does an individual do if they do n…
see24 updated
1 month ago
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Only shapefiles can be input into the Spatial Data Analysis portion of the app. Keyhole Markup Language (kmz), Geographic Markup Language (gml), and GeoPackage (gpkg) file formats were tested and do n…
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Hi,
I was looking into the vignette script you provided for the Thrane melanoma dataset and especially how to do the DE analysis
using the seurat_cluster_DE function (http://www.ezstatconsulting.c…
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Hello,
Thank you so much for developing the fascinating tool, which has been incredibly useful for my research!!!
I am inferring malignant cell fractions through CNV and then performing deconvol…
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@fuerzhou Thanks for putting in so much work on spatial data analysis!
I am trying to process my spatial proteomics dataset, which consists of over 150 processed IMC images. Therefore my anndata ob…