Dear All, I couldn't find this documented, but is there a way to get iterator access to the matchIntervals of an NLMSA slice? Also is there a way to make NLMSA slice just get an iterator into the NLMSA object query, which it may execute at a later time as needed? The reason I'm asking is that when working with large alignments (like for mapping of next gen. sequencing datasets) when one queries on the reference NLMSA goes in and takes out ALL the matches before returning. This is a usability concern since response time is very slow. I would rather prefer to get an iterator into the results and have my downstream processing work with that so that I can see what results I'm getting as early as possible. Any ideas on how to achieve this behavior?
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