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Thank you for the great tool. I have been trying to run mstat on some DNA methylomes (see command below). When I set of -f to pdf, I get the below error message and the .data output file has NAs in mo…
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Hi DSS developers.
Thanks so much for the package. We have started using DSS to find DML/DMR for our RRBS data obtained from normal, primary and relapse sarcoma human tumors.
For now I am running …
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**Is your feature request related to a problem? Please describe.**
As `poly` grows, more and more types will be shared between nominally unrelated packages.
For example, many packages will deal w…
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### Data Owner Name
ENCODE Data Coordinating Center
### Data Owner Country/Region
United States
### Data Owner Industry
Life Science / Healthcare
### Website
https://www.encodeproject.org/
###…
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Hi everyone,
I'm trying to use Megalodon, but I'm totally failing to do so.
I have confirmed that I can run guppy on my data with a model to detect modified bases, and the output has the right SAM…
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Hi,
I've run `modkit summary` on some modified bam files (5mC and 5hmC calling). Base calling was done using Dorado 0.7.0 using model dna_r10.4.1_e8.2_400bps_sup@v4.3.0_5mC_5hmC@v1. I've used `modk…
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## LoL
1. On which protein is the first ChIP-Seq is performed?
1. In ChIP-Seq, what factors contribute to a spurious peak? What experimental/computational procedures can you take to reduce such no…
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I ran DSS with some WGBS data, and after a overnight running with 50 threads on my culster, it showed:
```
Estimating dispersion for each CpG site, this will take a while ... …
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Hi.
I am trying to Visualize the correlation between DNA methylation and gene expression results using canvasXpress.
This is the chart i want.
I want to express the results to be obtained from …
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Hi Haseeb,
This time around I wastrying to make circos plots for DNA methylation data.
All I had when I began was the output file from minfi for this work.
This means a lot of things to learn and…