CARD

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Error Error in norm_cords$x - min(norm_cords$x) : non-numeric argument to binary operator

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Hello @YingMa0107 @YMalab > # Make CARD object > CARD_obj = createCARDObject( + sc_count = sc_count, + sc_meta = sc_meta, + spatial_count = spatial_count, + spatial_location = spatial_location, + ct.varname...

krigia

location of the deconvoluted spots

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Hi, I am wondering after deconvolution is it possible to see which specific "spot" has what proportions of cell types and in return look at that spots gene enrichment and...

chrkuo

Using single cell data from different sources as input

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Hi, We are trying to use single-cell data from different sources as input for CARD to do the deconvolution. Since the input for CARD is raw counts. I was wondering...

Qirongmao97

Basis matrix is different for the same snRNA-seq but different spatial samples

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Hi, thanks for presenting CARD. One question regarding the basis matrix construction, I've used the same snRNA-seq to deconvolute different spatial samples, but the gene list in the basis matrix...

Qirongmao97

Hi Thanks for your work. I want to learn and reproduce the example of the `CARDfree` with the MOB and Mouse hippocampus data in the article. However, I can not...

xiangpin

CARD_SCMapping

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Hi developers, Thank you so much for developing this helpful tool. I am extremely interested in you SC mapping function. I have a deconvoluted CARD object with single cell reference...

lindsdudley

Hi, thanks for the fantastic work. Could you please provide detailed information about the annotations with the region labels, and share the annotation information of Fig 3a and Fig 4a?...

raywzr

Hi, How does CARD method deal with the batch effect of the SCrna and spatial dataset? It seems like the paper (including supplementary) never talked about it.

yjkweon24

Thanks for the fascinating work! Could you mind also sharing the annotation information of Fig 3a about the regions where different spots of the MOB data belong? Thanks so much!

jiatingyu-amss

hi nice tools. demo data used. ``` scMapping = CARD_SCMapping(CARD_obj, shapeSpot="Square", numCell=20, ncore=1) MapCellCords = as.data.frame(colData(scMapping)) ```  **why a single cell will appear multiple times ? i cannot understand....

lvmt