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Posts by james.hawley
... Bismark calls methylation values and stores the calls in the `XM` tag of each read in the BAM file. You can use MethylDackel do this, or you can count the number of 'z' and 'Z' characters for each read (pair) in the BAM ...
... Take a look at the `molecular.subtyping` in the [genefu](https://www.bioconductor.org/packages/release/bioc/html/genefu.html) Bioconductor package ...
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