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update TODO

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efischer
2022-09-21 18:09:37 +00:00
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@@ -330,6 +330,7 @@ roughly as though it had a constant well population equal to the plate's average
## TODO ## TODO
* Enable post-filtering instead of pre-filtering. Pre-filtering of things like singleton sequences or saturating-occupancy sequences reduces graph size, but could conceivably reduce pairing accuracy by throwing away data. While these sequences have very little signal, it would be interesting to compare unfiltered results to filtered results. This would require a much, much faster MWM algorithm, though, to handle the much larger graphs. Possible one of the linear-time approximation algorithms.
* ~~Try invoking GC at end of workloads to reduce paging to disk~~ DONE * ~~Try invoking GC at end of workloads to reduce paging to disk~~ DONE
* ~~Hold graph data in memory until another graph is read-in? ABANDONED UNABANDONED~~ DONE * ~~Hold graph data in memory until another graph is read-in? ABANDONED UNABANDONED~~ DONE
* ~~*No, this won't work, because BiGpairSEQ simulations alter the underlying graph based on filtering constraints. Changes would cascade with multiple experiments.*~~ * ~~*No, this won't work, because BiGpairSEQ simulations alter the underlying graph based on filtering constraints. Changes would cascade with multiple experiments.*~~