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P is only 5 when use usher and nextstrain data #27

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Xiaofeiff opened this issue Jun 22, 2022 · 1 comment
Open

P is only 5 when use usher and nextstrain data #27

Xiaofeiff opened this issue Jun 22, 2022 · 1 comment

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@Xiaofeiff
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Hello, I don't have GISAID_FEED, so I can't use gisaid data. However, the location number is extramley small.
['Asia / Pakistan', 'Europe / United Kingdom',
'Europe / United Kingdom / England',
'Europe / [United]
Kingdom / Northern Ireland',
'Europe / United Kingdom / Scotland',
'Europe / United Kingdom / Wales']
Half of usher metadata don't have location.
148670 Found metadata:
{'day': 5582313, 'lineage': 5588405, 'location': 2364050}

644530 Found 5593265 samples in the usher tree
644530 Skipped 3229326 nodes because:
Counter({'no location': 3218360, 'no date': 10966})

@MaxLiu245
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I meet the same problem.

The number of available samples are quite small after aligning the UShER and NextStrain Data...

Does anyone have a solution for it?😥

@bkotzen @fritzo

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