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- bgzf_getc is slow as it's a heavy function and not inlined. Most of the time though it's just an array fetch, so inline the basic form and revert to the function call for the complex form. - isgraph and all other ctype functions are slow. We assume ASCII and just do a naive implementation. The speed benefits are (seconds): Old New Index GRCh38 13.4 8.4 Query chr1 1.7 0.9 Given a significant speed change for a small localised modification it seems worth while having.
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