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Hi,
first of all, thank you for this tool. It has really saved our ass in a different experiment where HTO-based demultiplexing failed. Thank you a lot.
I am running now vireo on two 10x sequenc…
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Hi all,
I am attempting to use ArchR to analyze combined scATAC-seq and scRNA-seq generated with the 10x Multiome kit. I have 8 different samples and have successfully created Arrow files and added…
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Hi again.
I tried to run the following step:
```
foregroundfile="sample_rep1-%.final.lig"
backgroundfile="sample_rep1-%.expression.lig"
nameParam="--fore $foregroundfile --back $backgroundf…
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Hi,
thanks for your work, I just hava a question about the `Viral_Track_scanning.R`. If there is no any mapping of virus, will it report an error like following?
```
Loading of the libraries.…
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Hi,
I am learning about visualizing multi dimensional data, So i found UMAP and t-SNE but by any chance can we also get the feature importance of the output.
By feature importance i mean that wh…
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We were considering adding cycle-consistency loss and VampPrior as described in [Integrating single-cell RNA-seq datasets with substantial batch effects | bioRxiv](https://www.biorxiv.org/content/10.1…
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Hi,
This algorithm looks great. I'm wondering if it has been systematically validated on multiple real datasets? And have there been papers published using this approach? I'm interested in using it…
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Hi, thank you for your work first.
I'm trying to run the model on another scRNA+scATAC-seq dataset following the steps in the 10x_pbmc_demo.
First steps correctly running .
```
trainer.model.eva…
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Hi,
I have been using the scuttle package functions quite some time now to analyse my scRNA-seq data (10x, aligned with salmon alevin), and at this point have a pretty streamlined code for what I n…
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I'm bulk RNA-seq data and sc-RNA data with Ensembl Ids. And using cell type Fibroblasts.
```
> dim(bk.dat)
[1] 546 19988
> dim(sc.dat)
[1] 1159 19828
> sort(table(cell.type.labels))
…