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Thank you for providing a good tool.
I am reaching out because I encountered an error while processing my scRNA data using scploid.
```
> plotPCA(ploidytest, cols = random_colours)
Error in svd…
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Hi, my scRNA-seq datasets (from 10X genomics) clustered by seurat, and now I want to know the DEGs (differential expressed genes) in each subtypes (clusters), how to use Libra?
just DE = run_de(sc) s…
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Hello,
We are analyzing Spatial Transcriptomics data from Visium 10X Genomics data, and we have multiple capture areas. We want to enhance our whole dataset with BayesSpace, but as it takes spatial…
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I'm trying to read an 10X genomics from a published data set (available on GEO accession GSM7937395), using the Read10X function, but keep getting the following error.The file naming convention is cor…
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Hello,
I would like to use this tool to determine the switch error in the haplotype-resolved genome.
But I don't have 10x genomics linked raw reads and only have pacbio raw reads.
So is it …
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Hello,
I was hoping you could share more about the input data structure. From the paper and github, it looks like you used a 10X Genomics pbmc dataset, and this 10X data was filtered and normalized…
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hi,
Thanks for your great work.:)
I read that log2(TPM+1) data are needed but not UMI gene-barcode matrix from cellranger pipeline of 10x genomics.can UMI count matrix be input by somehow transf…
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### Name of the tool
Parse Biosciences Split pipeline
### Tool homepage
https://www.parsebiosciences.com/
### Tool description
similar to cellranger, parse biosciences pipeline allowes analysis o…
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### Affected tool(s)
ConvertToRefFlat
### Affected version(s)
- [X] Latest public release version [2.5.1]
- [ ] Latest development/master branch as of [date of test?]
### Description
I am a…
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I am trying to follow the methods section of the paper "RNA velocity of single cells". In the method section, authors have written
> For the 10x genomics platform datasets, the BAM file was process…