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Hi dropseqpipers,
I have downsampled some single cell data to test for the quality of the results using the same number of reads per cell. I have given each of my 100 cells 10,000 reads in the fa…
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Hello, I hope you can guide me. Download Fastqs from SRA (SRR9843421), it is sequence data from Microwell-seq.
Use
then I used the Drop-seq protocol you posted. The DGE matrix with the following co…
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Dear sir
Hello! Please ask questions about the detectbeadsubstitutionerrors module! Got report Txt, the results are as follows:
![image](https://user-images.githubusercontent.com/67781404/16665233…
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Hi,when I`m running example data on the Preprocessing transcriptomic library step, I encounter the problem.
![98adec7c81a075a584e7f534f283f83](https://github.com/user-attachments/assets/cd0b8f0a…
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Hii
While running the Snakemake pipeline, the script stops at
INFO 2021-09-12 23:40:09 BarcodeListRetrieval Looking for the top 5000 cell barcodes
INFO 2021-09-12 23:40:09 BarcodeL…
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Hi,
I encountered an error after the ReduceGTF step in the pipeline - Invalid GTF line and missing transcript_name.
I am running it on Arabidopsis data, so I changed the rule that fetches the an…
vuzun updated
4 years ago
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Hi BIMSB team,
I've been working on getting your pipeline up and running as a non-root user on our group's compute cluster. Unfortunately, installing guix isn't an option in my case, but after some…
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Hello,
I'm having trouble getting dropulation in Drop-seq v3.0.0 and v3.0.1 to work. For v3.0.0 I receive the errors when I try to run:
```
AssignCellsToSamples: 40: Syntax error: "(" unexpecte…
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Dear community,
I have 4 lane files for each sample. I want to run Alevin on these samples. Alevin runs without any error, but the mapping rate is too low (about 5%). I tried different k-mers, diff…
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I am trying to split a large BAM file into smaller bam files by tags that contain a cellular barcode. Bamtools is able to generate the files, but is unable to write the sequences into them.
I used th…