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Not sure what is the issue here
> as.anndata(x = obj2, file_path = "/tmp", file_name = "obj_anndata.h5ad")
• Checking Seurat object validity & Extracting Data
Warning: No layers found matching se…
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- Remove layers
- Copy layers from an anndata object to another one
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Hi,
Thank you for this package. It looks great and I'm really looking forward to using it!
I'm struggling a little with setting up my srt object with an anndata input. I load the anndata from a …
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Hi,
I tried both the conda and docker (using singularity) versions
I run the following
MATK -t SuperCell -i data/cd34_multiome_rna.h5ad -o MATK_output/SuperCell/cd34/ -n 50 -f 2000 -k 30 -g 75…
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# Need
We are currently using anndata==0.8.0. At the time of writing this ticket anndata is on 0.10.7. The longer we wait to upgrade the more difficult it will be.
Updating the version in the CLI …
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**Describe the Error**
I would like to run the Giotto tutorial for Stereo-seq spatial analysis (https://giottosuite.readthedocs.io/en/latest/subsections/datasets/SSeq-E12-5_E1S3-Tutorial.html).
Ma…
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### Please describe your wishes and possible alternatives to achieve the desired result.
This feature would allow to write the AnnData object to a specific path in a zarr store. It requires very sli…
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**Description:**
When trying to resolve an AnnData matrix with multiple conditions (Ex: LPS treatments at 3 different timepoints), it does not allow these sort of multivariate comparisons.
Image o…
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Hi TREASMO team,
paper looked really cool! So I wanted to try and run on some of my own data and the code provided:
rna = ad.read_h5ad('data/HSPC_Muon_RNA.h5ad')
atac = ad.read_h5ad('data/HSPC_Muon…