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When I ran the code:
hmrf=initHMRF_V2(brain, expression_values="scaled",
spatial_network_name="spatial_network",
use_spatial_genes="binSpect",
gene_sampl…
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When I ran the code:
hmrf=initHMRF_V2(brain, expression_values="scaled",
spatial_network_name="spatial_network",
use_spatial_genes="binSpect",
gene_sampl…
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Hi! I am using Giotto to analyse the transcriptome detected with Visium on 6 tissue sections, aiming to perform cell-type deconvolution with a single nuclei RNA seq dataset from two similar samples.
…
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Hi,
When running dohmrf, it fails at certain cases. It happens very randomly, for example, it fails to cluster when my k is 11 but works when my k is 12. This is the code that I am running.
…
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Hi,
I am attempting Ligand-Receptor cell-cell communication data analysis. I cannot import the txt file that is from the giotto package:
```
` > LR_data list.files(system.file("extdata", pack…
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Sorry if I misunderstood the documentation in advance. Is there a reason that the output of ripser_parallell returns a dictionary of lists, whereas in giotto-tda the output of the equivalent calculati…
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![image](https://github.com/pachterlab/SpatialFeatureExperiment/assets/51966240/1f769773-3d93-404f-9850-bc3c8c77b892)
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Hello,
I started using DeepSpeed with the Caltech256 data set and pytorch data loaders.
The caltech data set is instantiated and data loaders are derived from the data set. These data loaders are …
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"Rosetta" won't find the value used in ESA / NASA archives, this is of course annoying: "international rosetta mission". This should be included in the alias list