More functions in counts-nano and updated hmr to take non-integer methylation counts#264
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andrewdavidsmith merged 7 commits intomasterfrom Jun 10, 2025
Merged
More functions in counts-nano and updated hmr to take non-integer methylation counts#264andrewdavidsmith merged 7 commits intomasterfrom
andrewdavidsmith merged 7 commits intomasterfrom
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…ing to integer counts so they can be used with fractional values from nanopore
…the beta-binomial distribution using the lngamma functions instead of the binomial coefficient so that non-integer values (from nanopore) can be used without forcing them to be integer
…ces in the reference genome and gzipped reference genome
…rom and processing current read; previous approach was probably missing one read per chromosome
…nopore discrete scaled probabilities and an option to directly write the symmetric CpG output
… the class var no_extra_fields when checking the format of MSite files by testing a line
…t so that nanopore with separation of methyl and hydroxy at ends of lines can be parsed
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