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The ONT reads were basecalled using Dorada with the model `dna_r10.4.1_e8.2_400bps_sup@v4.3.0_5mCG_5hmCG@v1`. I tried using modkit to generate CpG methylation and hydroxymethylation pileups. It turned…
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I tried using NanoMethPhase to detect allele-specific hydroxymethylation but the results do not make sense. As shown below, apparently there is difference between the two haplotypes, but the `diff` va…
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Hi @GMOD team,
The fields of epigenetics and now epitranscriptomics have evolved very fast in recent years and there are now a few DNA and RNA modifications which can be detected at single molecule…
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Hello,
I would like to use bonito/remora to call hydroxymethylation. While the 5mC calling seems to work fine, I get the following error when I try to run `bonito basecaller dna_r9.4.1_e8_sup@v3.3 …
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https://mp.weixin.qq.com/s/SaWjigR5dEaW59HcLSK2YQ
ixxmu updated
2 years ago
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Hello! I have matched bisulfite and oxidative bisulfite paired-end RRBS data from mouse brain which I have processed with TrimGalore and Bismark. The intention was to be able to calculate DNA hydroxym…
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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/samarafk/MLML2R
Confirm the following by editing …
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Hello,
In continuation of my work on the restriction terms,
I'd like to request addition of and/or modfications to
the definitions for the restriction enzyme complex terms:
1. type I site-specific …