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Performance improvement #1

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aaron-gu opened this issue Dec 19, 2019 · 2 comments
Open

Performance improvement #1

aaron-gu opened this issue Dec 19, 2019 · 2 comments
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enhancement New feature or request

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@aaron-gu
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Python Pandas is slow for the large number of single-row operations in bedshift. It may be faster to read bedfiles into a native object like a list or dictionary and conduct operations on it.
@aaron-gu aaron-gu added the enhancement New feature or request label Dec 19, 2019
@aaron-gu aaron-gu self-assigned this Dec 19, 2019
@aaron-gu
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This has been mostly addressed with commit d6674fc. Cut and merge are the two slowest operations now, but can still complete reasonably quickly. I'll keep this issue open to see if we can move off of pandas in the future.

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Also see #11

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