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| Name | Department/Program | Experties/Interests |GitHub ID |
| ------------- | ------------- | ------------- | ------------- |
| Arjun Baghela | Bioinformatics | Immunology & Transcriptomics | …
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Hi,
I used Methylscore with default parameters to call DMRs between 23 samples separately for each context. I have noticed that some DMRs show up multiple times with one of their "methylation rate"…
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Dear Prof. Guoliang,
I tried to run BatMeth2 using the latest version and used 10000 reads from SRR8100594.sra. The latest version managed to generate most of the graph and figure except Heatmap an…
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Hello. Thank you for creating this useful tool! I called mC and hmC bases, aligned the .bam files, sorted and indexed, and then created bed files. Then I wanted to perform modkit dmr pair on my two sa…
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I have a DNA methylation matrix with 30 samples and about 770k probes. Two phenotypes exist in these 30 samples. I would like to compare samples with different phenotype and obtain the differential me…
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Hello
Great tool! It's the easiest tool I could find for analysing methylation data from megalodon. I am working with bacterial species. Is there any way to rank genes by methylation probability? S…
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Hi,
I am working with WGBS data on a non-model organism. I used Bismark (with Bowtie) to align my reads and would like to use Methylpy to identify DMRs. I installed methylpy in a conda environment…
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Hi Felix,
We've recently analysed a paired-end 150 bp RRBS dataset, which ended having insert sizes well below 100 bp. This really concerned us, because insert size is having a huge impact on the d…
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Hi everyone,
I have a question regarding the analysis of data derived from modkits. I am working with two sets of data (for the moment, a few samples): one concerning samples sequenced without PCR am…
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I have just started exploring use of DMRcate for DMR detection but have concerns about the approaches dmrcate offers for ranking DMRs. DMRcate offers Fisher's combination, Stouffer's combination, and …