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SunXQlab / ST-deconvoulution

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Tools for benchmarking and integration (R and Python environments) #2

Open noob000007 opened 3 months ago

noob000007 commented 3 months ago

"Could you please let us know if you have integrated these tools and packaged the environment for direct use, or do we still need to manually configure the R and Python environments ourselves?"

R RCTD (by spacexr of version 2.0.0) Giotto/PAGE/RANK/Hypergeometric (Version 1.1.0) spatialDWLS (by Giotto of Version 1.1.0) SPOTlight (Version 0.1.7) Seurat (Version 4.0.5) STdeconvolve (Version 0.1.0) EnDecon

Python cell2location (Version 0.7a0, python = 3.7) DestVI (scvi-tools Version 0.11.0, python = 3.7) stereoscope (Version 0.3.1, python = 3.9.5) STRIDE (Version 0.0.1b0, python = 3.8.12) Tangram (Version 1.0.0, python = 3.8.13)

luluyan0606 commented 3 months ago

Hi, in the "ST-deconvolution" repository, we didn't integrate the all tools and package the environment, because these tools require different versions of R and Python, so you need to install these tools by yourself according to the tool's website instructions.