ralanany

How to get gzipped tab-separated-values (tabix file) from bedmethyl file generated by modkit, for down stream analysis by nanomethviz R package?

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## I have 10 bedmethyl files for 10 patients(1 bedmethylfile/patient). I want to generate the tabix file(input for ## nanomethviz R package) for down stream processing. I want the following...

I have some questions regarding the bed methyl file, would you help?

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# Q1: Would you explain why there is difference? I have bed methyl file for cytosine modification, what I have understood for each modified site, it measures the frequency of...

Error during merging bedmethyl files

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I am trying to merge two bedmethyl files, each produced from 2 different samples, using this command modkit bedmethyl merge sample_a.bed.gz sample_b.bed.gz > merged.bed I get this error error: unrecognized...

Thank you, for the amazing tool, I have 9 bedmethyl files(4 control and 5 disease cases), these files generated from modkit tool. I have some questions

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# 1- I want to make differential methylation anlysis between these samples, I thought I should use that command mentioned in the tutorial modkit dmr multi \ -s ${norm_pileup_1}.gz norm1...

Hi, I have bam file and indexed bam file for a sample produced from modkit tool, both are together in the same folder, I want to constructModBamFiles object by ModBamFiles but I get error "/ont" does not have bam index

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samples= c("r1") paths="/ont" (n.b) ont folder contains r1.bam, r1.bam.bai # Trying to get the S4 object files=ModBamFiles(samples, paths) #error "/ont" does not have bam index, this can be fixed by...

## I have 10 bedmethyl files for 10 patients(1 bedmethylfile/patient). I want to generate the tabix file(input for ## nanomethviz R package) for down stream processing. I want the following...