-
Hello, thank you for developing this great and easy to use tool. Have you got any recommendations on using it for non sequencing-based transcriptomic methods e.g. 10X Visium? What are the implications…
-
Hi! Thanks for the great tool! Could GeneNMF be applied to 10x visium data ?
-
Hello, I am trying Seurat for the latest visium HD data and trying to use SpatialFeaturePlot function. I used the exact same script shown in vignette for preprocessing, but the feature plot is just H&…
-
Hello, when running 'imt_gsea', I encountered an error: 'TypeError: gsea() got an unexpected keyword argument 'perm_index'.' I've tried various methods but still can't resolve it. Can you help me? The…
-
**DO NOT INCLUDE REQUESTS IN THE FIRST COMMENT.**
**PLEASE POST THIS TEMPLATE UNCHANGED THEN FOLLOW ITS INSTRUCTIONS IN A NEW COMMENT**
# General Notes
This repository serves as a mostly automa…
-
Hi,
I looked at all examples you have and I am wondering if you can add can add one example for scRNA-seq with the image.
https://vitessce.github.io/vitessce-r/articles/ome_tiff_remote.html
all t…
-
I hope this message finds you well. I am currently working with your package (likely SPATA2 or another spatial transcriptomics-related package) and encountered an issue when attempting to use the asMo…
-
Integrate data and workflows from the [Galaxy reference based transcriptomics training](https://training.galaxyproject.org/training-material/topics/transcriptomics/tutorials/ref-based/tutorial.html) w…
-
Hello,
I'm struggling with the type of data that you require for transcriptomics functions: what is the structure of the dict `gene_exp` that you need?
```
def eFlux(model, gene_exp, scale_rxn=…
-
Hi,
Since bactopia has such a comprehensive toolset (both as part of a workflow, or separate modules and tools), I wondered if a transcriptome workflow would could be added if even realistic?
I'…