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Self hits do not have 100% OF #8

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donovan-h-parks opened this issue Nov 8, 2016 · 2 comments
Open

Self hits do not have 100% OF #8

donovan-h-parks opened this issue Nov 8, 2016 · 2 comments

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@donovan-h-parks
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Self hits are currently reported as close to, but not 100% OF. Counting error?
@donovan-h-parks
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This is due to short, incomplete genes not meeting the minimum requirements for being reported. Probably such genes should be filtered from consideration so that the OF is more accurate.

@donovan-h-parks
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Probably best to fix this with a flag --ignore_incomplete where incomplete genes can optionally be ignored. In general, this is a very marginal case and most incomplete genes are long enough that considering them is the better default option.

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