A4 Q1b - not too sure what the scope is. Is this a Motif Finding problem or is this a Motif Discovery problem?

Hey all, Not too sure how to interpret Q1b. The question seems to be asking about finding all instances of 'the' motif, as in, this motif is known, in a given set of DNA sequences. Which is odd, because 'why a set of DNA sequences'? The set of DNA sequences seems to imply that this is a Motif Discovery problem - but it's not a motif discovery problem if the motif is known. ....

Alright - after rereading the questions, I think it could work as a motif discovery problem, if we reverse the order of Q1a and Q1b. Perhaps the question can be interpreted as such: Given a set of DNA sequence, identify the instances of some motif. Now given the instances of these motif, how would you formally define it.

Seeing that this is under the Motif Discovery section - that might just be what the question is asking.

Thoughts?

-A

Ah..no. It's probably not the right interpretation now. They want an algorithm for each definition. Ah now I'm stuck. ..... still open for any thoughts on this though.

Got a reply from Dr. Holger, and the proper interpretation of Q1a and Q1b is that these two questions are really asking for Motif Finding and not Motif Discovery.

Cheers.