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**Describe the bug**
Hi there,
I‘m using ArchR to analysis my ATAC data. And I want to do barcode filtering in `createArrowFiles` step. I found that `getValidBarcodes` could help me extract the val…
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I am trying to use a Single Cell dataset from from one project to deconvolute a Bulk RNAseq dataset from a different project. When i run Squid I am getting an error when SQUOD.R is trying to create th…
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Hi,
Thanks so much for this helpful tool! When I analyze my single nuclei dataset, I'm able to run pseudobulk and mixed model analyses through Libra but when I attempt to run a single cell analysis…
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**Is your feature request related to a problem? Please describe.**
It is not currently straightforward to pass external dataloaders to train a model. In particular, loading `torch.Tensor` data and di…
j-bac updated
3 months ago
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Dear Shaked,
I got the following error while trying to run TRAPeS on my data.
2020-05-29 22:22:53.066237 Working on: PB_629_L001-hisat2-sorted
/usr/local/analysis/trapes/20191013-20ea562/bin/trape…
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Hi @ctrapnell
Thanks to developing the great tools for pseudotime analysis in singlecell.
I use monocle to make a pseudotime anlysis with my single cell sequencing data. After dimension red…
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I am trying to use rapids_singlecell for analysing a large dataset (> 2 Million cells). When running their function for performing differential gene expression analysis, it works fine for a smaller su…
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### Description of the bug
Hello,
This project a very exciting development for reproducible and standardized single cell analysis. However, I'm having some difficulty getting GPU acceleration to wor…
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Hi, thank you for your work, which has made our single cell analysis much faster.
However, when the nnz of the matrix exceeds the maximum limit of 32 bits, the preprocessing process needs to be perfo…
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Hi,
A lot of thanks to you and your team for the great contributions to singlecell DE analysis and making this wonderful package !
I was using Libra to run DE analysis in my own sc-seq datas…