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pblischak / HyDe

Hybridization detection using phylogenetic invariants
http://hybridization-detection.readthedocs.io
GNU General Public License v3.0
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why my results gamma were nan and the AAAA AAAB ......were 0.0？ #37

Open yuanjigui opened 1 year ago

yuanjigui commented 1 year ago

P1 Hybrid P2 Zscore Pvalue Gamma AAAA AAAB AABA AABB AABC ABAA ABAB ABAC ABBA BAAA ABBC CABC BACA BCAA ABCD sp37 sp48 sp41 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp41 sp48 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp48 sp37 sp41 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp48 sp40 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp40 sp48 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp48 sp37 sp40 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp48 sp43 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp43 sp48 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp48 sp37 sp43 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp48 sp42 8.94427191 0.0 nan 40320104.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp42 sp48 8.94427191 0.0 nan 40320104.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp48 sp37 sp42 8.94427191 0.0 nan 40320104.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp48 sp45 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp45 sp48 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp48 sp37 sp45 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp48 sp44 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp44 sp48 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp48 sp37 sp44 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp48 sp47 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp47 sp48 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp48 sp37 sp47 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp48 sp46 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp46 sp48 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp48 sp37 sp46 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp48 sp8 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 sp37 sp8 sp48 12.6491106407 0.0 nan 80640208.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0

pblischak commented 1 year ago

It looks like all of your site patterns are AAAA, so the program is saying that there is no variation in your data. If you want to send me your input data file and map then I can check those out to see if I can spot what may be going on. You can also double check to make sure that your data and map are formatted according to the documentation: HyDe Data Files

yuanjigui commented 1 year ago

Dear professor

I meet a number problem， In my results， May I admit that SSBW population was hybrids of FJC and ZJC populations.

------------------ Original ------------------ From: "pblischak/HyDe" @.>; Date: Thu, Apr 6, 2023 02:35 AM @.>; @.**@.>; Subject: Re: [pblischak/HyDe] why my results gamma were nan and the AAAA AAAB ......were 0.0？ (Issue #37)

It looks like all of your site patterns are AAAA, so the program is saying that there is no variation in your data. If you want to send me your input data file and map then I can check those out to see if I can spot what may be going on. You can also double check to make sure that your data and map are formatted according to the documentation: HyDe Data Files

— Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you authored the thread.Message ID: @.***>

pblischak commented 1 year ago

From your results there are no SSBW, FJC, or ZJC populations so I'm not sure I can help determine if something is a hybrid here. Your results definitely make it seem like something is wrong with the input data, so I don't think you can conclude anything from the results that you have right now. Also, could you please just respond to this issue that is still open. I closed the other ones so that we can discuss the issue in a single place instead of having to manage multiple conversations.