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Hello,
I am interested in generating a track that summarizes (using color code) the number of nucleotides aligning at each position. In essence it would be identical to the track that is automaticall…
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Hi, my bam files have been generated based on bismark v0.22.1.
It doesn't seem to fit the script since it has been built on bismark v0.12.3
I am aligning one of the bam files using Bismark v0.12.…
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Dorado basecaller for ONT can call 5mC/5hmC not only at CpG, but also at CH sequence, now.
And many researchers, I think, like to visualize the modification at CG and CH separately, as IGV have those…
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Thank you for this project, Weilong. It's awesome. I have however reached a barrier I can't seem to cross and need your help.
$python /data/home/users/afenn/BSSeeker/bs_seeker2-align.py --aligner=b…
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Hi,
I'm working with short-read, enzymatic converted human genome reads produced by nanopore. The expected read-lenght is about 150-200bp; + additional Illumina adaptors + nanopore adaptors; so i t…
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Hi,
I am trying to use BSmooth function on the 16 WGBS samples and it showed the following error.
Please suggest me what I need to correct?
I used the following code for reading my 16 coverag…
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I'm trying to implement writing to an **arbitrary** _RealizationSink_ backend via `BiocParallel::bplapply()` with an **arbitrary** _BiocParallelParam_ backend. That is, I want to be able to construct …
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Hi,
In your paper you have mentioned that "dmrseq is generally applicable to WGBS data". My impression is that methods that work for WGBS also work for RRBS data. Have you tried dmrseq for RRBS data?…
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Since we want to reach as many people as possible we should provide the conda recipe for easy setup of environment, but pointing out the benefits of guix in a hpc environment and maybe link to guix-hp…