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Hi, I'm running into memory issues while attempting to run the following scrna pipeline:
```
nextflow run singleron-RD/scrna \
--input /mnt/d/SC_RNAseq_WTvchrna3C246X_singleron_midbrains/sampleshe…
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### Description of the bug
Missing output file(s) *.Solo.out/GeneFull_Ex50pAS/CellReads.stats expected by process SINGLERONRD_SCRNA:SCRNA:STARSOLO (JW121_E)
Please fix, why the required file is not …
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### Description of the bug
--limitBAMsortRAM cannot be set by --star_options '--limitBAMsortRAM 800000000000', it can only be set by custom config, which override any other existing config.
I've a…
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Hi,
I have been using MATES for short read data recently and I wanted to try ATAC data only, however, I am not sure how to process the data.
First, to keep multi mapping information, is it necessary…
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Hello,
I am very interested to use this tool in my work! I wondered if we had four different biological samples for 10X Multiome (which I've integrated using scRNA and Seurat's integration pipeline),…
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This is a question about the .table file. I understand that LIGER integrates the scATAC and scRNA-seq. What exactly does this .table contain, and how can I generate it from other pipelines (Seruat, sc…
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Hello! Our project is currently focused on burst kinetics, and we found your pipeline can estimate kinetic parameters from nonallele-specific scRNA-seq data. We downloaded nnRNA and have successfully …
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Hi, I have finished scRNA-seq cell annotation in python with standardized pipeline.
I only want to compare the metabolism activity between 3 subtypes.
I want to know if
1.I should convert the h5ad…
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**User story**
As a user of the scRNA Core Donor Pooling pipeline, I would like the LIMS to support bed verification of the transfer from the LRC PBMC Cryostor tube rack into the LRC PBMC Defrost PBS…
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Hi Bokai and Shuxiao,
I would first like to thank you for developing this interesting method and making it open-sourced. I found the protein annotation and spatial pattern discovery section particu…