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Hi all!
I have a problem with the LSI function, I get the following error. I want to analyze single cell( Atac-seq) data for two mouse samples.
I figure out that running an each sample separately …
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Hi Dr. Zhang,
I read your Polarbear paper and planned to run the model on some multiomics data for the Human Brain to see how well your model performs on human brain tissue. Do you have a pretraine…
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Could be downstream of https://github.com/tidyomics/genomics-todos/issues/1
Work through multi-sample multi-condition differential test using pseudobulked counts, a la a hybrid of `muscat` and `csaw`
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Hi,
Thank you for your great tools for single cell multi-omics analysis. I successfully ran the cite-seq demo but failed to ran our scRNA+scATAC data with following error report:
The input …
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Hi,
I wonder if I can trick SCENT for bulk RNAseq data
Cheers
Chirag.
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Hi!
I have a sample (no labeling) of stem cell differentiation data in both scRNA-seq and scATAC-seq, but I only have one BAM file from 10x. Just wanna make sure that your method could be applied to …
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Hello,
I am wondering whether there is a straightforward way to use AMULET with the output of scATAC-pro. The vignettes seem to require the outputs from cellranger which conveniently produce a csv…
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Hello!
This might be an unusual request, but I have been attempting to use Salmon Alevin for mapping of **scATAC-seq data** (10X Genomics platform) and have a few questions on how to best do this (/w…
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Congratulations on the wonderful-looking update on VIA.
This is my first time trying to use VIA (or StaVia), and it seems like the tutorial for [scATAC-seq Hematopoiesis] link is not working corre…
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Hi Taiji author,
Thanks for creating this useful tool for key TF identification!
I have some general questions of running Taiji on RNA + histone marks.
1. I'm running RNA + H3K27ac bam fil…