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Dear community
I have simular problems as in issue #1273. This was closed in April by satijalab with the comment
"These are good ideas and we will explore." and I would like to reopen the discuss…
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When genetic demultiplexing (#33) is done (or sooner), we should add documentation about any special notes on files created by the demultiplexing workflow. This will include notes about the `internal`…
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Hello,
This package looks amazing, and I am really excited because it seems to help with the issue of tag-jumping. The problem is that dealing with a full sequencing run with this package is unmana…
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/compbiomed/MetaScope
Confirm the following by edi…
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I encountered a problem with the interop parsing of our latest VeriSeq run. I use Python3.9 and the Illumina interop parser version 1.1.23. When I try to load the interop files using:
```python
# …
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Hi again! Sorry for all my issue requests, but I am learning bioinformatics as a hobby with RNAseq, therefore, my knowledge on code is very limited!!
So I wanted to run the pipeline on my own time …
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Hi,
I would like to demultiplex Illumina sequences of the ITS2 region. The barcodes are in the head of the sequence and I have two separated files gITS7 which is forward and ITS4 which is the rever…
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Hi,
I have been trying unsuccessfully to run the Master of Pores 2, mop_preprocess pipeline. I installed Docker and Guppy as mentioned in the installation doc. My input folder (2xpA-293T) includes…
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Genetic demultiplexing is a slow and expensive process, as it requires full alignment and SNP calling in multiple bulk samples and each multiplexed library. So we should have the ability to skip it if…
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The genetic demultiplexing workflow currently implemented in https://github.com/AlexsLemonade/alsf-scpca/tree/main/workflows/genetic-demux should be integrated into the main scpca-nf workflow.
If …