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Hi @kdkorthauer
Is it possible to use dmrseq with MeDiP-Seq data?
If so, what would be the parameters to be considered?
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Hi,
Does anyone know where to find the positions of the 1,709 motifs used in the [signalAlign paper](https://www.nature.com/articles/nmeth.4189) in Nature Mehods?
I just cannot figure out how to p…
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Hi @jts ,
In the methylation frequency results, the last column is group_sequence which may only include one single CpG or multiple CpGs. As I understand the "compare_methylation.py" script only me…
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Whilst mapping I came across a mapping error reminiscent of: #46
_2019-08-16 08:36:36,894 ERROR: Process '/usr/local/lib/python3.5/dist-packages/gemBS/gemBSbinaries/gem-mapper' finished with 1
T…
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Howdy, I got the similar issue with the closed #130 :
INFO 2020-01-09 11:54:49,110 starting /home/.local/bin/addsnv.py called with args: /home/.local/bin/addsnv.py -v test1.txt -f in_BAM/test_bam/…
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Hello,
I research Whole-Genome Bisulfite Sequencing in _Arabidopsis thaliana_.
I have a question about methdiff.py.
When I carried out methdiff.py, program was spewed following error.
python m…
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Dear Felix,
I have a question regarding the output that Bismark returns in the terminal, which gives details on the numbers of concordant/discordant pairs, and which does not appear in the outputte…
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Hello:
Can you add a parameter that do not remove barcodre+primer sequence. I really need the original subreads sequence that only get the demuxed data.
Thank you !
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We have a few undergoing and planned bisulfite sequencing projects. These projects have a few hundred samples for species with gigabase+ size genomes. We found that Walt performed really well for the …
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If possible, could you please add another option `--bisulfite` which, when specified in conjunction with `--get_genomes`, downloads pre-made indexes for Bismark in addition to the Bowtie2 indexes you …