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Hello everyone!
My Name is Azlan and i am currently analyzing our ONT Data. I wanted to use uxm and wgbs_tools to further investigate the methylation status in different samples and just wanted to…
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Hi
I have two sets of input data, one from Nanopore and the other from PacBio. Could you please advise on the ‘--data_type’ parameter? Should I choose ‘pacbio_ccs’ or ‘nanopore’? My goal is to obtain…
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Hello,
We were using the dev-branch and running the example Nanopore data and it worked correctly without errors, but we are having issues running Natrix with our own data (also Nanopore data). We …
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Hi,
quick question, would this also work on nanopore data (10.4 flow cells)? what would be the optimal settings to run ska2 on?
thanks!
Pieter
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There are some issues with this training that I collect here to fix step-by-step.
* In the preprocessing part, all fastq outputs go into multiQC, but since multiQC only shows one output for identical…
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Hello, I'm running the following command in my terminal:
**fastp -i user/nanopore/inputs/ -o user/nanopore/outputs/ -A -G --qualified_quality_phred 10 --reads_to_process 5000 --thread 8**
Althou…
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Hello, Dr McIntyre,
Althrough some research have used PacBio data to detect 6mA in the plant which l' m interested, using nanopore data to detect 6mA in this plant species has not been available so f…
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Hi,
can I use purge_dups for nanopore based assemblies as well?
Thanks,
Jacqueline
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Hi,
I got the following error when I ran `xpore diffmod`
```
Loading python/3.9.13
Loading requirement: gcc/7.2.0 readline/8.1 curl/7.74.0 libxml2/2.9.1
pcre/8.44.utf8 libpng/1.2.59 sq…
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Hi
With a recent update nanopore is now producing a new format. Is this also accepted at the ENA? (https://ena-docs.readthedocs.io/en/latest/submit/fileprep/reads.html#oxford-nanopore)
Best reg…