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I'm getting the following error while following the tutorial:
pt28_obj[["Peaks"]]
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Recently, I wanted to integrate snATAC and snRNA data collected from different platforms using Seurat's multi-omics integration function. However, after testing (including testing the small datasets p…
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The output peak file is a 3-column BED file without a score or signal.value field which eschews any ability to use this peak caller in conjunction with something like IDR if we have replicates. Is the…
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Thanks for your great work! I am a grad student in Anshul Kundaje's lab and would like to propose adding the dynseq track to IGV which we have discussed briefly with @jrobinso on some of the ENCODE ca…
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Hi,
am trying to analyze my ATAC Seq data. I ran successfully build the genomw index, but when I tried to start analysis program, it gives following error.
Please help what should I do?
Thank you…
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msCentipede works fine for test data, but when I tried applied to other data with ATAC-seq model, learn model gives
/home/bxu2/opt/msCentipede/mscentipede.py:15: RuntimeWarning: overflow encountered …
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hi, looking to transfer all my multiome analyses to this comprehensive package :)
however, running into an issue and can't think of potential solutions... and thanks in advance for troubleshooting h…
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Hello, thank you very much for providing such a great tool.
My data consists of 10x single-cell sequencing of 12 different regions of a transplanted human heart sample, which has been working in the…
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Hi,
could you please explain how can I carry run DTW time delay analysis across modalities? as mentioned in the paper, I ran RunChromVAR but what's the input file used in example code? https://git…
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I'm just following the tutorial for 10x multiome in the document. I have errors for ATAC-seq preprocessing.
I would like to ask all the errors that I encountered when I ran following function.
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