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update TODO

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eugenefischer
2022-10-03 21:30:32 -05:00
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@@ -620,9 +620,9 @@ the file of distinct cells may enable better simulated replication of this exper
* Update performance data in this readme
* Add section to ReadMe describing data filtering methods.
* Re-implement CDR1 matching method
* Refactor simulator code to collect all needed data in a single scan of the plate
* Currently it scans once for the vertices and then again for the edge weights. This made simulating read depth awkward, and incompatible with caching of plate files.
* This would be a fairly major rewrite of the simulator code, but could make things faster, and would definitely make them cleaner.
* ~~Refactor simulator code to collect all needed data in a single scan of the plate~~ DONE
* ~~Currently it scans once for the vertices and then again for the edge weights. This made simulating read depth awkward, and incompatible with caching of plate files.~~
* ~~This would be a fairly major rewrite of the simulator code, but could make things faster, and would definitely make them cleaner.~~
* Implement Duan and Su's maximum weight matching algorithm
* Add controllable algorithm-type parameter?
* This would be fun and valuable, but probably take more time than I have for a hobby project.