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Hi
Could you please guide me on obtaining the fixed bin set? It's a critical component for validating the GEMINI model on an independent cohort. However, I couldn't find this vital information in eit…
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(Posting here because the forked repo doesn't have issues: @gavinha, you might want to enable them)
A couple of papers suggested that selecting DNA fragments that match nucleosome size, or slightly…
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Thank you very much for the great tool!
I recently found this manuscript from your group:
"The DNA methylome of human vascular endothelium and its use in liquid biopsies"
It complements the ref…
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Hi,
Thanks for the methylation analysis pipeline.
I was testing a human WGBS data with msPIPE, and I used UCSC hg38 for reference. When running with run_MethylSeekR.pl, I got the following error…
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I have used the following options :
subcommand：
- segment --drop-low-coverage --drop-outliers
- call -filer ci ,sem ,ampdel,cn
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Hello,
I'm interested in the Dreams package, and I've been trying to use it with my data.
I'm working with deep-sequenced targeted panels of cfDNA.
For the initial step, I used the following cod…
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I have completed steps 1 to 4 and obtained a file named 'test.FinaleMe.mincg7.prediction.bed.gz'. This file contains the predicted methylation levels for each CpG site in the ref genome. How can I de…
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Talking with Dr.Sun to ensure the research topic, read the paper "DNA methylation analysis explores the molecular basis of plasma cell-free DNA fragmentation. Nature Communications, 14(287), https://d…
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I don't know if the author is aware of the issue with incomplete removal of sequence adaptors and barcodes.
Specifically, when using tools such as Dorado Demux, Porechop, and Guppy_barcoder to trim a…
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### Have you checked the docs?
- [X] [nf-core website: troubleshooting](https://nf-co.re/usage/troubleshooting)
- [X] [nf-core modules documentation](https://nf-co.re/docs/contributing/modules)
### …