search

r3fang / SnapTools

A module for working with snap files in Python
Apache License 2.0
35 stars 21 forks source link

Custom genome name #38

Open kgj1234 opened 3 years ago

kgj1234 commented 3 years ago

When working with a custom genome, I was able to successfully index the genome. However, when I use snap-pre it is unclear what to set as the genome name. I assumed it was the output prefix after indexing the genome, but it appears your code only looks at the internal GENOMELIST object. Was indexing the genome supposed to add it to the list? What am I supposed to use for the genome name?

zeynepsayar commented 2 years ago

Hi @kgj1234 I'm having the same issue, were you able to figure it out?

kgj1234 commented 2 years ago

Right now, I don't think it can be done without major refactoring of the source code.

I switched to Signac for analysis of non-standard genomes.

On Wed, Apr 13, 2022 at 11:55 AM zeynepsayar @.***> wrote:

Hi @kgj1234 https://urldefense.com/v3/__https://github.com/kgj1234__;!!CzAuKJ42GuquVTTmVmPViYEvSg!KypIME8uLj-yaP81dWtw6f8SdXBxggQIP9rd29A0UCnEqXu6c8ENncqGpem-UTPNjr_Wo8Yk_yhUcv5v8PHAibCl$ I'm having the same issue, were you able to figure it out?

— Reply to this email directly, view it on GitHub https://urldefense.com/v3/__https://github.com/r3fang/SnapTools/issues/38*issuecomment-1098379288__;Iw!!CzAuKJ42GuquVTTmVmPViYEvSg!KypIME8uLj-yaP81dWtw6f8SdXBxggQIP9rd29A0UCnEqXu6c8ENncqGpem-UTPNjr_Wo8Yk_yhUcv5v8HH8e8L9$, or unsubscribe https://urldefense.com/v3/__https://github.com/notifications/unsubscribe-auth/AF5TISSPJKB5E6VK4OJ54QLVE4KDPANCNFSM5CRKAT2A__;!!CzAuKJ42GuquVTTmVmPViYEvSg!KypIME8uLj-yaP81dWtw6f8SdXBxggQIP9rd29A0UCnEqXu6c8ENncqGpem-UTPNjr_Wo8Yk_yhUcv5v8CAtTFs2$ . You are receiving this because you were mentioned.Message ID: @.***>