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Hello there,
I just run modkit pileup on my freshly aligned RNA direct sample and after running it, the column "modified base code" is displaying 17802 for some rows ? By any chance would you know…
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It is clear that eventalign-dependent modules does not support R10.4, but it looks like polya uses non-eventaligned durations. Does this mean that polya should be fine to run on R10.4 data, or should …
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Hello,
I used rnabloom to construct a transcriptome from direct RNA data with the following:
rnabloom -long all_reads.fastq -stranded -t 25 -outdir dir/ -u true
The rnabloom.transcripts.fa a…
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> They have changed the structure of the Seurat object with sc@assays$RNA@layers$counts rather than sc@assays$RNA@counts, so the save isn't recognising this difference when saving.
>
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whtns updated
15 hours ago
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Hello!
I have this message every time when I tied to generate pictures:
"An error occurred while generating. Check the issues tab on GitHub to see if this has been reported before:
RuntimeError…
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while processing the data with Tombo before using MINES, which reference fasta should be used for ONT direct RNA sequencing data - genome or cDNA fasta.
akk01 updated
3 years ago
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Dear developer,
I would like to ask whether Xron can be used for base-calling of RNA-sequencing data obtained from RNA004 direct RNA-Seq runs. Data are either *.fast5 or *.pod5.
Thanks and best
…
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### Ask away!
Hello,
I am trying to get the demo model to work using the following script on HPC and I get a couple of error Plus 4 more processes waiting for tasks…
Doing reference based transcr…
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### Ask away!
Hi,
In main.nf, input_reads is fed to differential_expression() and in differential_expression.nf the workflow differential_expression {} has full_len_reads defined. I've seen workfl…
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Hi, I'm trying to perform a m6a (on RNA) detection using tombo (and some other softwares).
I'm having trouble performing the resquiggle, I've read many of the other opened issues and I can't find a …