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Hi all,
I try to run createIndicies, but it fails. Seems like an error in conda environment?
Gratefull for help!
log:
(snakePipes) leif@leif-OptiPlex-9020:~/Desktop$ createIndices -o ~/Documen…
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Hi,
I have used the package on scRNA data. I am wondering if I can also use sc/snATAC seq data with the package. I believe the package uses the gene names at some point. So, if I want to use ATAC d…
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For the `Data Types` field
- convert the check box array to a single dropdown list that allows only one value to be selected (still stored in an array on the backend, though)
- change the `Data…
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Hi,
Thank you for creating such a useful tool.
I am trying to reproduce the tutorial: Analyzing PBMC scATAC-seq using the following code (the same of the tutorial)
```r
library(Signac)
li…
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Attempting to validate a previous result I got with ArchR using a biological replicate. So I've successfully run the entire pipeline before on a different set of scRNA and scATAC data. Biological repl…
bc2zb updated
3 years ago
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I believe this is a data problem, but not sure who is going to pick it up:
There are a number of files in this [Bulk ATAC-seq](https://portal-prod.stage.hubmapconsortium.org/browse/dataset/9c0574ba…
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As per @jswelling:
```
Writing cell by gene data to cell_by_gene.hdf5
[1] TRUE
Error in asMethod(object) :
Cholmod error 'problem too large' at file ../Core/cholmod_dense.c, line 102
Calls: h5…
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Hi,
i have sc ATAC seq data, which is not produced by 10x Chromium. After bcl2fastq, i have R1.fastq, R2.fastq (forward and reverse) and I1 und I2 fastq. I would love to start the pipeline with dem…
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Hi @timoast ,
I was running the ScRNA and the ATAC 10X multiomic data in below step showing me below error.
The preprocess step was:
annotation
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Hi thank you for the nice pipeline, I liked your article a lot!
Could you share with me an example of Star solo mapping of sc-atac-seq data to have the 'CR:Z' or 'UR:Z' tags in the bam file?
I …