Comments (5)
Apologies, I put some information here: https://github.com/jts/mbtools/tree/main#compiling
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Thanks Jared,
Now its working.
However, I understood that it should work with ONT modified bams (MM ML tags). But it seems that these modifications are not recognized by mbtool, running: mbtools read-region-frequency -r '39Bisulfite.tsv' -g '/home/access/ref_genomes/hg38.fa' --cpg 'my_modified_bam.bam'
results in "Processed 1564146 reads in 44.714603338s. Mean modification frequency: NaN"
Am I missing something?
Is there a way to turn ONT modified bam into a standard modified bam?
Assaf
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Hi @assafgrw,
ONT's bams are standard mod bams so should work. Can you share a few lines or part of the bam file with me?
Jared
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