-
Notifications
You must be signed in to change notification settings - Fork 102
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
Import/Export of variant monomers from Fasta/Sequence #2015
Milestone
Comments
In addition to X as a symbol that represents "any amino acid", following symbols for Peptides should be supported:
|
This was referenced Jul 29, 2024
By |
AliaksandrDziarkach
added a commit
that referenced
this issue
Aug 14, 2024
Add variant monomers support for Sequence/Fasta. Add UT
7 tasks
even1024
pushed a commit
that referenced
this issue
Aug 15, 2024
Co-authored-by: Aliakasndr Dziarkach <Aliakasndr.Dziarkach@gmail.com>
This was referenced Sep 4, 2024
Verified with issues. Versions
|
This was referenced Sep 9, 2024
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Background
Sometimes users need to register oligonucleotides containing randomized or "mixed" bases. It means that on the defined position a variant monomer could occur.
Variant monomer is a monomer which can be used instead of another monomer within listed variants.
Requirements
In addition to the requirements for import/export Sequences #1426 and Fasta #1755 the following symbols should be supported for:
If one of the following base symbols is entered (first column), this means that the base in the nucleotide can be represented by any of the bases indicated in the second column (in equimolar ratio)
When importing
X
should be interpreted as variant monomer which could be any of unmodified peptide monomer X={A, C, D, E, F, G, H, I, K, L, M, N, P, Q, R, S, T, V, W, Y}When exporting symbol 'X' could be used both for variant monomers and for peptide monomers with natural analogue 'X'
The text was updated successfully, but these errors were encountered: