Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

nanopolish output bam file with MM/ML tags #1037

Closed
yinshiyi opened this issue Sep 12, 2022 · 1 comment
Closed

nanopolish output bam file with MM/ML tags #1037

yinshiyi opened this issue Sep 12, 2022 · 1 comment

Comments

@yinshiyi
Copy link

I came across @jts 's package https://github.com/jts/mbtools
It seems convert the bam file with MM tags into TSV tables.
Currently it seems the nanopolish call-methlyation output the TSV tables.
I am curious if nanopolish call-methlyation can output bam file with MM tags.

I also across these related tickets
samtools/hts-specs#582
#939
Thank you!

@jts
Copy link
Owner

jts commented Sep 12, 2022

Yes, version 0.14 can output mod bams by using the --modbam-output-name option.

@jts jts closed this as completed Sep 15, 2022
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

2 participants