wtwt5237
commented
2 weeks ago Hello!!
Thank you for your interest in our tool. Your idea of combing sprod and tangram is interesting and certainly worth trying! We have not done that before, so could not offer any guidance. I guess you can try either way, and see which option gives you the best performance? Please keep us posted on your results! We also want to know!
Tao
From: wuliRothschild @.> Sent: Thursday, November 7, 2024 7:40 AM To: yunguan-wang/SPROD @.> Cc: Subscribed @.***> Subject: [yunguan-wang/SPROD] Combined analysis with Tangram tool (Issue #43)
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Hello SPROD author!
Tools like Tangram or gimVI can utilize scRNA-seq data to predict and impute spatial data, but they seem to be unable to denoise contaminated data. Therefore, I am considering using Tangram in conjunction with SPROD. May I ask whether I should apply SPROD for denoising first or use Tangram to integrate scRNA-seq data to enhance the spatial transcriptome expression matrix first?
Thank you for any assistance!
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Hello SPROD author!
Tools like Tangram or gimVI can utilize scRNA-seq data to predict and impute spatial data, but they seem to be unable to denoise contaminated data. Therefore, I am considering using Tangram in conjunction with SPROD. May I ask whether I should apply SPROD for denoising first or use Tangram to integrate scRNA-seq data to enhance the spatial transcriptome expression matrix first?
Thank you for any assistance!