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

Add function to import IEDB native format #7

Open
burkesquires opened this issue Mar 15, 2018 · 1 comment
Open

Add function to import IEDB native format #7

burkesquires opened this issue Mar 15, 2018 · 1 comment
Assignees

Comments

@burkesquires
Copy link
Owner

burkesquires commented Mar 15, 2018

Add a function to natively read IEDB epitope format; such as "H25, H45, V46, N47, L496, S306, L307, P308, T333"

NOTE: Further enhance to allow for epitopes to be pasted that are discontinuous peptides on multi chains such as: "A: H25, H45, V46, N47, L496, S306, L307, P308, T333; B: D363, G364, W365, Q382, T385, Q386, I389, D390, T393, V396, N397, I400;"

Basically strip off the characters or better yet extract the characters and use them to find the reference sequence

@burkesquires
Copy link
Owner Author

Instead of having users copy and paste from IED, it would be better to accept an IEDB ID, get the epitope information AND the reference sequence that is part of the IEDB record. An ID such as 226309 with webpage here: http://www.iedb.org/assayId/1599742

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Projects
None yet
Development

No branches or pull requests

1 participant