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## Description
due to the server network, I can not run
img = sq.datasets.visium_hne_image()
adata = sq.datasets.visium_hne_adata()
so I downloaded the visium_fluo.h5ad on another computer …
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Hi, I am trying to convert a h5ad file to Seurat object but am faced with this error can I please please get some help.
This is my inout code :
sceasy::convertFormat("GSE175533_sceasy_hay.h5ad",…
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I found that your input h5ad data has coordinates in both obs and obsm. Are they both necessary? What is the difference between the x, y coordinates in obs and obsm? I think the cell location is descr…
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Hello!
We are currently trying to submit one of our lab's datasets (Input KYSE150_KDM4C_KO_Sensitivity#3) as an h5ad file to the scGPT Hub. However, in step three of the submission process, where w…
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Hi. I'm trying to read in a h5ad file which was generated from seurat R package. I am using this function: adata = sdm.read_spatialdm_h5ad(filename), but I get KeyError: 'geneInter'. Is this not the …
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Dear Christophe,
I have a very large h5ad file that consists of ~950 patients and >1 million cells. I want to subset at least 100k cells to run inferCNV but unfortunately this takes up too much RAM…
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Only works when first tried and then iterated over categoricals to strings again
This is before `surgery_model.train()`
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Hello, I was very happy to see that you make for all experiments h5ad objects available.
However, I tried to open the one and got the following error:
```
(self, X, obs, var, uns, obsm, varm,…
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Hello,
Using the MappedCollection, I am trying to load a big h5ad file that can't fit into memory. It works as expected and doesn't initially load the whole file into memory.
However, if I started…
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Hello @danielsf,
Thank you for putting together this wonderful tool. For our analysis workflow, we would like to be able to create region specific reference based on the ABC WMB taxonomy. I follo…