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parklab / bamsnap

MIT License
110 stars 24 forks source link

Would you please support mm10? #23

Open shengqh opened 3 years ago

shengqh commented 3 years ago

Thank you so much for this great tool. I recently replace my visualization tools with bamsnap on our pipeline. However, today I just figured out that bamsnap didn't support mm10. Is it possible to support it?

SeongGyuKwon commented 3 years ago

Hello,

I am using bamsnap fine with bam files aligned with mm10. (I am not a developer of this tool.)

It would be helpful if you post the error code.

shengqh commented 3 years ago

Hello,

I am using bamsnap fine with bam files aligned with mm10. (I am not a developer of this tool.)

It would be helpful if you post the error code.

Without official support, we cannot draw gene track in figure.

shengqh commented 3 years ago

Hello, I am using bamsnap fine with bam files aligned with mm10. (I am not a developer of this tool.) It would be helpful if you post the error code.

Without official support, we cannot draw gene track in figure.

Or, is it possible to share the code that you used to generate reference genome files?

shengqh commented 3 years ago

I forked and added mm10 support at https://github.com/shengqh/bamsnap. I used the script under folder data to convert ensembl gtf to bed format that bamsnap required.