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Hi,
Is it possible to provide more details about the training datasets used for `res_dna_r941_min_modbases_5mC_CpG_v001` and `res_dna_r941_min_modbases_5mC_v001`? Are they trained with native human d…
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Hi, Felix!
Thanks for the awesome tool!
I'm using it for NOMe-seq experiment data analysis and I want to reduce the amount of mistakes. In IGV I see that for some reads the bisulfite conversion d…
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Hi, I'm using Bismark (0.23.0) in Snakemake pipeline to process many of the WGBS. I've noticed that some of my BAMs have fewer reads than expected, and ambiguous/unaligned FASTQ files have invalid for…
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Hello,
Thank you for your developing bismark for the community. We, however, observed inconsistent bismark bam output between different --multicore setting. These bams would lead to ~0.2% differenc…
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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/GarrettJenkinson/borealis
Confirm the following…
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I am trying to use methpipe and can't seem to get it to work for me.
I first run:
abismalidx FINAL_MX_HiC_50CHRs_rn.fa MX.abismalidx
This produces an index file that is 2.7G from my 2.3G genom…
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Dear Alexdobin,
I am working on a SLAM-seq data which use to measure the stability of RNA transcripts. This method calculates the transcripts' half life with the T to C transition which cause by th…
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Hi, and thanks for the effort developing megalodon. We're working on incorporating it into our analysis pipeline and have gotten stuck on understanding what the right way to view the output in IGV is.…
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Dear developers,
I encounter errors and don't know how to fix, could you provide some suggestions?
```sh
(wes) [shenao@ctl01 build]$ ../configure
checking for a BSD-compatible install... /usr/…
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Good morning,
I am using MethylSeekR to define PMDs in a cancer cell line using WGBS data, thank you for developing the tool.
However, the result of the segmentation is somehow puzzling to me: I o…