Closed ssnn-airr closed 6 years ago
Original report by Roy Jiang (Bitbucket: ruoyijiangyale, ).
cProfile suggests that indexing and slice operations related to using pandas dfs are slowing down countMismatches.
Removing pandas from estimateerror with either csv or numpy replacement.
Original comment by Roy Jiang (Bitbucket: ruoyijiangyale, ).
EstimateError.py still needs unit testing overall. Should be a noticeable performance difference with new branch EstimateErrorNoPandas.
Original comment by Jason Vander Heiden (Bitbucket: javh, GitHub: javh).
Also see Sequence.calculateSetError.
Sequence.calculateSetError
Original report by Roy Jiang (Bitbucket: ruoyijiangyale, ).
cProfile suggests that indexing and slice operations related to using pandas dfs are slowing down countMismatches.
Removing pandas from estimateerror with either csv or numpy replacement.