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Hi,
thanks for the cool tool and continued support! :)
I tried to run TRUST4 on a Bam file (created with cellranger count) that contained data that was multiplexed with the help of Antibody has…
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Thanks you for developing snapATAC tools,
and i have a question:
I followed the "Integrative Analysis of PBMC scATAC-seq and scRNA-seq" pipeline.
1. drawing the prediction score in histogram…
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[Running_scTE_pipeline_output_error.txt](https://github.com/user-attachments/files/17848347/Running_scTE_pipeline_output_error.txt)
Hello @jphe @l1y1y @oaxiom @carmarpe,
I was wondering if any o…
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Hi,
It is just a naive idea. According to the paper, you describe that scATAC-seq has the issue of "missingness" like the dropout in scRNA-seq data. So what if using a zero-inflated Bernoulli to char…
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Hi guys,
The reference human PBMC data shows "403 ERROR" when I was trying to download it while running Seurat V5 Vignette "Dictionary Learning for cross-modality integration." I can neither downlo…
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Hello, thanks for providing such an amazing tools!
I noticed this tool is available for bulk RNA data. But since the scRNA-seq data is much more large and sparse, I don't know whether it can work w…
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Hello,
Recently, I'm reading the paper, **Single cell transcriptomics reveals spatial and temporal dynamics
of gene expression in the developing mouse spinal cord**. I have some naive problems.
1.…
hahia updated
4 years ago
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I frequently work with single-cell multi-omics data (mostly scRNA-seq + CITE-seq, but scATAC-seq is also expected), and it is known that different modalities for the same samples requires separate seq…
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After running the function runGenePeakcorr I get this error message:
Error in (function (classes, fdef, mtable) :
unable to find an inherited method for function ‘letterFrequency’ for signature…
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I had posted this to our internal discourse topic ([Immune infiltrate lit review](http://discourse.hammerlab.org/t/immune-infiltrate-literature-review/842/17)); posting this here so we can track it.
…