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This is regarding the quote obtained for WGBS sequencing (#1732) .
For this sequencing run we plan to include DNA from a few different Pacific cod tissue types (blood, fin, jawbone). The blood and…
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Thank you for developing this tool; I think it might be very useful for sharing our research data.
I want to ask you for advice in applying `bamboozle` to bisulfite converted data.
Bisulfite trea…
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I thnk that I could model non-methylated Cs as C->T SNPs and Gs as G->A SNPs , but the VCF will be *VERY* large.
Since methylation sequencing is directional, I'll also have to do a second simulatio…
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metheor looks like exactly the tool I need, however I am not using bisulfite data as input. I called methylation directly using nanopore sequencing and my .bam files store it with MM and ML tags accor…
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Hi,
these days, i analysis bisulfite sequencing using BSseeker2.
but some target reads are aligned to multiple location of genome.
so i want to know where is this region.
what can i do?
Bes…
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I would like to build gemBS but I don't know what to do to ensure binaries are correctly installed.
```bash
#!/bin/bash
git clone --recursive https://github.com/heathsc/gemBS.git
cd gemBS
sed…
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Dear authors,
Thank you for creating accel-aligner. It is very fast and sensitive in my tests.
I have been trying to apply accel-aligner to bisulfite sequencing reads and was able to successful…
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I understand that bwa-meth aligns to the c2t converted reference. Would it be possible to change bwa-meth also to align to the g2a converted reference?
I believe this is what bismark calls "--pbat" o…
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Hello,
I've been using your Revelio with Freebayes to call variants on methylation libraries. We were able to get good agreement between our methylated libraries and benchmarking variant dataset. …
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I ran the example in https://nanopolish.readthedocs.io/en/latest/quickstart_call_methylation.html.
However, I noticed that some reported coordinates were not pointed to C/G base and probably shift -1…