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.

Sign up for GitHub

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

Jump to bottom

question on strandedness option #101

Open
adalgarno opened this issue Jan 5, 2023 · 2 comments
Open

question on strandedness option #101

adalgarno opened this issue Jan 5, 2023 · 2 comments

Comments

@adalgarno
Copy link

Hello,

For the rna strandedness direction I'm wondering whether to pick the forward or reverse direction -- the company that did our sequencing noted that for our data Read 1 is forward and Read 2 is reverse.

Thanks!
@gabdank
Copy link

gabdank commented Jan 5, 2023

The "directionality" of RNA strandedness is dictated by the specific kit and protocol used to construct the RNA library. I am not sure the sequencing company answer you mentioned is indicative of the strandedness of the RNA library in question. If it is indicative, then your library strandedness is forward (--fr-stranded).

@adalgarno
Copy link
Author

I'm using libraries created with NEB's Ultra II Dir RNA kit which uses dUTP technology. Do you know the answer in this case?

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
2 participants
@gabdank @adalgarno