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Hi Alex,
I have some 10X chromium fastq libraries (R1/R2), each with HTO libraries (R1/R2) for sample demultiplexing. I successfully ran "cellranger count" but we wanted to replicate this using STARs…
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### Description of feature
Since Porechop is no longer supported, it is maybe useful to investigate [Porechop_ABI](https://github.com/bonsai-team/Porechop_ABI) as alternative.
Or https://github.…
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Hello Pierre,
I was able to run Viral-Track successfully. However, I noticed that if you don't run the transcriptome assembly step `Viral_Track_cell_demultiplexing.R` crashes because the basic GTF …
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Hi, I would like to use lentiviral plasmid barcode libraries for lineage tracing based on an approach called STICR that was developed in a Nature paper last year. I have ordered two plasmid pools from…
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Hi~
We have used demuxlet for demultiplexing, but it takes two days to complete a single task, which is too slow. I suspect that there might be an issue with my parameter settings. Is there any solut…
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## Description
In the context of demultiplexing, I have identified 7 different Illumina flow cell cases that share many characteristics:
- HiSeqX single index
- HiSeqX double index
- HiSeq2500 d…
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A simple question.
I use the albacore output directory as input folder for porechop, but then the failed reads seemes to be included. Should i only use the "pass" folder from the albacore output a…
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Hi dorado team,
Thank you for your excellent work! I have tried to demultiplex my reads using custom barcodes, by specifying the custom_barcodes.toml and custom_barcodes.fa. However, I found that no …
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Given recent changes to require full length primer matches in #351, may make sense to also use ``cutadapt ... --no-indels`` with the bonus that this should be faster too:
*Also, with the ``--no-ind…
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Hello,
We have samples that will be genotyped on different arrays, will this be a problem when demultiplexing due to less overlap of shared snps?
Thank you,
Carolyn