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I'm not sure when you added glimmaMDS and glimmaMD but I just learned about them and I'm super happy to have a stand-alone html version - thanks so much!! I haven't tried to embed them in .Rmd yet, bu…
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Hi
I was trying to covert my matrix of normalized results post DESeq2 pipeline back to a DESeq object:
(A) First I ran DESeq and normalization to result to a matrix (abund):
dds = phyloseq_to_dese…
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作者您好,我理解deit_dge.py中,应该是使用了 Dynamic Grained Encoder。但是在代码dge.py中,sparse_train默认是false,并且这个参数在DynamicGrainedEncoder初始化的时候也没改,那么训练的时候走的是这个循环吗?
https://github.com/StevenGrove/vtpack/blob/38d5af0c3d91811…
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Workflow currently includes omitting genes found in less than 50 cells, but this is done on a per capture level. This causes some genes to be omitted from captures and present in others, which may aff…
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Hi the as.loom function is not converting my Seurat object to loom and running into an error message. Is there a reason why this is happening?
```
> dge_E.loom
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Hi, thanks for your comprehensive data from the adult mouse brain.
I came across some issue when following the instructions from the file "dropviz/html/dge-instructions.html". When i read the "F_GR…
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In #472 , I bumped the STRING input data to v11.5 and changed all references to it...or at least I thought so.
Here's one I missed:
```
10:11:43 Traceback (most recent call last):
10:11:43 Fil…
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My scope: I want to implement Dropseq for total RNA seq.
Function:
1. TagReadWithGeneFunction
Issue: the gene ID without gene names and transcript were removed. Mostly, those are from miRNA.
R…
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Hi
Firstly, thank you for developing this package for Spatial data - I am finding it very useful!
I had a question which does not seem to be covered in the tutorial (https://davislaboratory.gith…
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### Bug description
I'm trying to embed the outputs in a .qmd file as follows. Note: There are multiple outputs in HTML widgets, so, don't want to overload the quatro document with it by render…