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Hi I'm trying to use the boxplot_alpha() function to plot alpha diversity across sample types, but I ran into an error that seems indicating that I do not have this function. Could you please help tro…
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Rather than making up some data - it would be good to import a csv and add it to the H5 file.
Also add a "create HDF5 lesson" part one that is very simple.
1. import a csv.
2. create the H5 file
3. a…
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[Line 181 of bioc2_integExamps.Rmd](https://github.com/genomicsclass/labs/blob/85a467a3dc5d8c97785b89b223ae0754cb72ebfd/biocadv_6x/bioc2_integExamps.Rmd#L181) generates the following error:
```
> …
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I encountered the following issue with running HiCBricks::Create_many_Bricks, following the vignette examples.
Error in h5writeDataset.data.frame(h5loc = Brick.handler, obj = object, :
…
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Hi, i currently perform multiome analysis (scATACseq+scRNAseq) based on https://greenleaflab.github.io/ArchR_2020/Ex-Analyze-Multiome.html and the master branch. I faced an issue during peak calling (…
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I have a SingleExperimentObject and I would like to convert it to seurat to use SCTransform. However, when I try, it does not work.
```r
seurat
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sc
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[ArchR-addImputeWeights-32256e4135c7-Date-2023-02-16_Time-15-58-20.log](https://github.com/GreenleafLab/ArchR/files/10758296/ArchR-addImputeWeights-32256e4135c7-Date-2023-02-16_Time-15-58-20.log)
[…
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Hello,
I encountered this error when running `RunAzimuth`, but I'm not sure how to trouble shoot given the message here:
```
Warning: Overwriting miscellanous data for model
Warning: Adding a dime…
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Hi there,
Following suggestions from #4741, #2463, #4729, I subset ADT protein by expression level using key, but it still threw the error as below. Yet, I can see it in `rownames` and `VlnPlot`. …