Ok, just to try out the new Strategy market.
This is more to test the system than for it to be applicable.
Melting Point between 97 and 107
Free Energy between 30 and 60
G bases of 22%
U bases of 13%
C bases of 20%
This is more to test the system than for it to be applicable.
Melting Point between 97 and 107
Free Energy between 30 and 60
G bases of 22%
U bases of 13%
C bases of 20%
 116 Posts
 20 Reply Likes
Posted 9 years ago
Jeehyung Lee, Alum
 708 Posts
 94 Reply Likes
Dear Berex NZ,
Your strategy has been added to our implementation queue with task id 2. You can check the schedule of the implementation here.
Thanks for sharing your idea!
Your strategy has been added to our implementation queue with task id 2. You can check the schedule of the implementation here.
Thanks for sharing your idea!
Jeehyung Lee, Alum
 708 Posts
 94 Reply Likes
Dear Berex NZ,
We are glad to report that your strategy has been implemented and tested.
Designs were penalized based on how much it's G,U,C percentage differed from 22%, 13 % and 20% respectively (i.e, the score of an RNA = 100  (difference between the RNA's G/C/U percentage and 22/13/20).
Designs were penalized by 10 when the meltpoint was not between 97 and 107.
Designs were penalized by 10 when the free energy was not between 30 and 60.
Length : Your strategy was implmented with 8 lines of code.
Ordering : We ran your strategy on all synthesized designs and ordered them based on predicted scores. The correlation of your strategy's ordering with the ordering based on the actual scores was 0.26. (1.0 is the best score, 1.0 is the worst score. A completely random prediction would have 0 correlation)
More detailed result has been posted on the strategy market page. Thank you for sharing your idea, and we look forward to other brilliant strategies from you!
We are glad to report that your strategy has been implemented and tested.
Designs were penalized based on how much it's G,U,C percentage differed from 22%, 13 % and 20% respectively (i.e, the score of an RNA = 100  (difference between the RNA's G/C/U percentage and 22/13/20).
Designs were penalized by 10 when the meltpoint was not between 97 and 107.
Designs were penalized by 10 when the free energy was not between 30 and 60.
Length : Your strategy was implmented with 8 lines of code.
Ordering : We ran your strategy on all synthesized designs and ordered them based on predicted scores. The correlation of your strategy's ordering with the ordering based on the actual scores was 0.26. (1.0 is the best score, 1.0 is the worst score. A completely random prediction would have 0 correlation)
More detailed result has been posted on the strategy market page. Thank you for sharing your idea, and we look forward to other brilliant strategies from you!
Jeehyung Lee, Alum
 708 Posts
 94 Reply Likes
Dear Berex,
We have ran an optimization algorithm over the parameters you have specified, and we are glad to report that your strategy's ordering score went up to 0.389
Specifically, we have used 13%, 10%, 21% for G,U,C percentages, 78~39 kj for the free energy and 60~110'C for the melt point.
Note that we'll always run a optimization over the parameters you specify, so you won't have to worry about fine tuning all the numbers you use. Just the idea and rough numbers are enough to run your algorithm!
We have ran an optimization algorithm over the parameters you have specified, and we are glad to report that your strategy's ordering score went up to 0.389
Specifically, we have used 13%, 10%, 21% for G,U,C percentages, 78~39 kj for the free energy and 60~110'C for the melt point.
Note that we'll always run a optimization over the parameters you specify, so you won't have to worry about fine tuning all the numbers you use. Just the idea and rough numbers are enough to run your algorithm!
Jeehyung Lee, Alum
 708 Posts
 94 Reply Likes
Dear Berex,
We made a change in the way we score the ordering. (Detail : Before if your algorithm said score of A and B is the same when they are not, it decreased your ordering score. In the new scoring, such decision does neither increase nor decreases your ordering score).
Your ordering score is now 0.458
We made a change in the way we score the ordering. (Detail : Before if your algorithm said score of A and B is the same when they are not, it decreased your ordering score. In the new scoring, such decision does neither increase nor decreases your ordering score).
Your ordering score is now 0.458
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