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

BLOSUM62 matrix: M to L has higher probability score than M to M #3

Open
ywlim opened this issue Aug 10, 2021 · 0 comments
Open

BLOSUM62 matrix: M to L has higher probability score than M to M #3

ywlim opened this issue Aug 10, 2021 · 0 comments

Comments

@ywlim
Copy link

ywlim commented Aug 10, 2021

I noticed in BLOSUM62_PROB.Rdata, M to L substitution has higher score than M to M. This is also true in the BLOSUM62 matrix from http://www.cs.cornell.edu/courses/cs626/2003sp/blosum62qij.txt.

For example, I was not able to generate the same image shown in the tutorial using the same peptide sequence.

"FIYRHMFCV" %>% pep_plot_images

Below is the generated image. Notice the score for substituting M_6 with L is the highest.

image
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
1 participant
@ywlim