Sequence generation with no duplicate pairs

October 4, 2012
By

(This article was first published on The Shape of Code » R, and kindly contributed to R-bloggers)

Given a fixed set of items (say, 6 A, 12 B and 12 C) what algorithm will generate a randomised sequence containing all of these items with any adjacent pairs being different, e.g., no AA, BB or CC in the sequence? The answer would seem to be provided in my last post. However, turning this bit of theory into practice uncovered a few problems.

Before analyzing the transition matrix approach let’s look at some of the simpler methods that people might use. The most obvious method that springs to mind is to calculate the expected percentage of each item and randomly draw unused items based on these individual item percentages, if the drawn item matches the current end of sequence it is returned to the pool and another random draw is made. The following is an implementation in R:

seq_gen_rand_total=function(item_count)
{
last_item=0
rand_seq=NULL
 
# Calculate each item's probability
item_total=sum(item_count)
item_prob=cumsum(item_count)/item_total
 
while (sum(item_count) > 0)
   {
# To recalculate on each iteration move the above two lines here.
   r_n=runif(1, 0, 1)
   new_item=which(r_n < item_prob)[1] # select an item
   if (new_item != last_item)         # different from last item?
      {
      if (item_count[new_item] > 0)   # are there any of these items left?
         {
         rand_seq=c(rand_seq, new_item)
         last_item=new_item
         item_count[new_item]=item_count[new_item]-1
         }
      }
   else # Have we reached a state where a duplicate will always be generated?
      if ((length(which(item_count != 0)) == 1) & (which(item_count != 0)[1] == last_item))
         return(0)
   }
 
return(rand_seq)
}

For instance, with 6 A, 12 B and 12 C, the expected probability is 0.2 for A, 0.4 for B and 0.4 for C. In practice if the last item drawn was a C then only an A or B can be selected and the effective probability of A is effectively increased to 0.3333. The red circles in the figure below show the normalised probability of an A appearing at different positions in the sequence of 30 items (averaged over 200,000 random sequences); ideally the normalised probability is 0.0333 for all positions in the sequence In practice the first position has the expected probability (there is no prior item to disturb the probability), the probability then jumps to a higher value and stays sort-of the same until the above-average usage cannot be sustained any more and there is a rapid decline (the sudden peak at position 29 is an end-of-sequence effect I talk about below).

Normalized probability of an A appearing at the given position in a sequence

What might be done to get closer to the ideal behavior? A moments thought leads to the understanding that item probabilities change as the sequence is generated; perhaps recalculating item probabilities after each item is generated will improve things. In practice (see blue dots above) the first few items in the sequence have the same probabilities (the slight differences are due to the standard error in the samples) and then there is a sort-of consistent gradual decline driven by the initial above average usage (and some end-of-sequence effects again).

Any sequential generation approach based on random selection runs the risk of reaching a state where a duplicate has to be generated because only one kind of item remains unused (around 80% and 40% respectively for the above algorithms). If the transition matrix is calculated on every iteration it is possible to detect the case when a given item must be generated to prevent being left with unusable items later on. The case that needs to be checked for is when the percentage of one item is greater than 50% of the total available items, when this occurs that item must be generated next, e.g., given (1 A, 1 B, 3 C) a C must be generated if the final list is to have the no-pair property.

Now the transition matrix approach. Here the last item generated selects the matrix row and a randomly generated value selects the item within the row. Let’s start by generating the matrix once and always using it to select the next item; the resulting normalised probability stays constant for much longer because the probabilities in the transition matrix are not so high that items get used up early in the sequence. There is a small decline near the end and the end-of-sequence effects kick in sooner. Around 55% of generated sequences failed because two of the items were used up early leaving a sequence of duplicates of the remaining item at the end.

Normalized probability of an A appearing at the given position in a sequence

Finally, or so I thought, the sought after algorithm using a transition matrix that is recalculated after every item is generated. Where did that oscillation towards the end of the sequence come from?

Normalized probability of an A appearing at the given position in a sequence

After a some head scratching I realised that the French & Perruchet algorithm is based on redistribution of the expected number of items pairs. Towards the end of the sequence there is a growing probability that the number of remaining As will have dropped to one; it is not possible to create an AA pair from only one A and the assumptions behind the transition matrix calculation break down. A good example of the consequences of this breakdown is the probability distribution for the five item sequences that the algorithm might generate from (1 A, 2 B, 2 C); an A will never appear in position 2 of the sequence:

Normalized probability of an A appearing at the given position in a sequence

After various false starts I decided to update the French & Perruchet algorithm to include and end-of-sequence state. This enabled me to adjust the average normalised probability of the main sequence (it has be just right to avoid excess/missing probability inflections at the end), but it did not help much with the oscillations in the last five items (it has to be said that my updated calculations involve a few hand-waving approximations of their own).

I found that a simple, ad hoc solution to damp down the oscillations is to increase any single item counts to somewhere around 1.3 to 1.4. More thought is needed here.

Normalized probability of an A appearing at the given position in a sequence

Are there other ways of generating sequences with the desired properties? French & Perruchet give one in their paper; this generates a random sequence, removes one item from any repeating pairs and then uses a random insert and shuffle algorithm to add back the removed items. Robert French responded very promptly to my queries about end-of-sequence effects, sending me a Matlab program implementing an updated version of the algorithm described in the original paper that he tells does not have this problem.

The advantage of the transition matrix approach is that the next item in the sequence can be generated on an as needed basis (provided the matrix is calculated on every iteration it is guaranteed to return a valid sequence if one exists; of course this recalculation removes some randomness for the sequence because what has gone before has some influence of the item distribution that follows). R code used for the above analysis.

I have not been able to locate any articles describing algorithms for generating sequences that are duplicate pair free and would be very interested to hear of any reader experiences.

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