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Hello, Dr. He. Sorry to bother you again.
I already knew that SEVtras would work with single cell RNA sequencing data produced by the 10x genomics chromium , which is based on droplet sequencing, but…
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Hi!
I am trying to run maxATAC on `scATAC` data from 10X system. I am running `maxatac preapre` and pointing the function to my fragments file that ends with `.tsv.gz` and it fails with (I think) a…
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Hello,
I'm interested in using the tool, and would ideally be able to use the same reference genome as what was used for the cellranger mapping (e.g. GRCh38-2020-A). However, it seems that only the…
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CC @giovp @LLehner
The 10x team reviewed the Xenium notebook and found it very useful! (Btw, it's ready to merge https://github.com/scverse/squidpy_notebooks/pull/125).
They suggested to consid…
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Please add feature.
10x
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It's a remarkable job you're doing. I would like to be able to analyze my 10X scRNAseq data with SPLASH. Is the run_10X pipeline available now?
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Add a warning message to Balance when trying to run very large/imbalanced weights (say, anything more than like 100k cases and population frame that's 10x the sample).
The thinking here is that, if t…
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This is just a place for me to quickly copy-paste images for use on my website.
Images:
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1. ![image](https://user-images.githubusercontent.com/6842199/150073601-de90690d-3a70-46fe-b3e…
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Unfortunately, DropEst is unable to work correctly with 10x V3. Should I simply use the new unfiltered barcodes for V3 and what other changes must be made?
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IMPORTANT
The package could benefit a TON by demonstrating `peco` on a separate 10X dataset. We have plenty available in Bioconductor. Perhaps look in `TENxPBMCData` for something small (~4k cells)…