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Thread: Mephisto's Grand K12 Modern Calculator

  1. #121
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    Can you run nMonte for me please?
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  2. #122
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    Quote Originally Posted by firemonkey View Post
    Can you run nMonte for me please?
    Yes, I will... If I would find my nMonte file.
    Quote Originally Posted by Mori yek View Post
    But your calculators are unfortunately not 23andme friendly.
    In what way are they not 23andme friendly? Even if you should have 23andme raw data, there will be more than 80000 SNPs considered, so more than in any Gedmatch calculator. Or what do you mean with "not 23andme friendly"?

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     firemonkey (05-19-2018)

  4. #123
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    firemonkey:
    Code:
    1. CLOSEST SINGLE ITEM DISTANCES"
    Scottish:HG00103  English:HG00128    Czech:NA15725  Finnish:HG00174 
            4.144744         4.161971         4.627040         5.968132 
      Belarusian:43s     Estonian:393  Ukrainian:Lv240    Lithuanian:F1 
            7.483241         8.363462         8.764291         9.122127
    The full table gives you more accurate results as I think, the distance is very low:
    Code:
    [1] "distance%=0.009 / distance=9e-05"
    
             firemonkey
                                   
    Orcadian:HGDP00796        11.20
    Icelandic:NA15762         10.75
    Scottish:HG00103           7.45
    Basque:HGDP01360           7.20
    Lithuanian:F1              6.70
    Estonian:393               6.10
    Norwegian:NOR119           5.70
    French:HGDP00524           5.15
    Sardinian:HGDP00666        3.40
    Hungarian:6                3.35
    Belarusian:43s             3.35
    Spanish:HG01503            3.35
    Czech:NA15725              2.95
    Finnish:HG00174            2.85
    Romanian:G408              2.65
    English:HG00128            2.45
    Italian_North:HGDP01147    1.60
    GujaratiA                  1.20
    Saami:SD60                 1.10
    Croatian:CRO107            1.10
    Russian:HGDP00879          1.00
    Brahui:HGDP00007           0.90
    Greek:NA17373              0.85
    Mordovian:27               0.70
    Sicilian:TP08              0.65
    Albanian:191               0.60
    Burusho:HGDP00412          0.50
    Punjabi:HG02687            0.50
    Moroccan:MCA9              0.50
    Sindhi:HGDP00181           0.40
    Sephardi_Jew:4953          0.40
    Cypriot:CYP5               0.35
    Makrani:HGDP00134          0.30
    Ashkenazi:5782             0.25
    Baloochi:HGDP00056         0.20
    Papuan:HGDP00545           0.20
    BedouinB:HGDP00641         0.20
    Australian:IHW9118         0.20
    Bulgarian:A4               0.20
    Tajik:tdj508               0.20
    Yemeni:al-Jawf             0.20
    Pathan:HGDP00213           0.15
    Kalash:HGDP00290           0.15
    Han:HGDP00781              0.10
    Mozabite:HGDP01272         0.10
    Saudi:A7                   0.10
    Ukrainian:Lv240            0.10
    Bengali:HG03007            0.10
    Algerian:43A22             0.10
    Iraqi_Jew:4061             0.10
    Iranian:14                 0.10
    And the restricted table:
    Code:
    [1] "distance%=0.4399 / distance=0.004399"
    
             firemonkey
                                 
    Orcadian:HGDP00796      23.75
    Romanian:G408           22.15
    Scottish:HG00103        16.00
    Basque:HGDP01360        11.95
    Estonian:393            11.40
    English:HG00128          3.50
    GujaratiA                3.35
    Italian_North:HGDP01147  2.35
    Saami:SD60               2.30
    Sardinian:HGDP00666      1.80
    Norwegian:NOR119         0.80
    Spanish:HG01503          0.55
    Czech:NA15725            0.10

  5. #124
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    Which nMonte file did you use?
    Code:
    [1] "1. CLOSEST SINGLE ITEM DISTANCES"
               Iranian:14         Kurdish:63722           Assyrian152 
                 6.525351              7.828659             11.129097 
           Iraqi_Jew:1771        Iraqi_Jew:1430 Turkish_Kayseri:24402 
                13.063996             15.158239             15.492879 
           Iraqi_Jew:4241        Iraqi_Jew:4061 
                15.962296             16.492131
    full table:
    Code:
    [1] "distance%=0.248 / distance=0.00248"
    
             Moriyek
                                   
    Abkhasian:41              22.20
    Brahui:HGDP00007          12.65
    Kalash:HGDP00290          11.80
    Pathan:HGDP00213          11.55
    Armenian:191              10.55
    BedouinB:HGDP00641         9.95
    Sardinian:HGDP00666        9.00
    Adygei:HGDP01387           3.35
    Greek:NA17373              1.85
    Assyrian152                1.80
    Iranian:14                 1.25
    English:HG00128            1.00
    Czech:NA15725              0.85
    GujaratiA                  0.80
    Sindhi:HGDP00181           0.40
    Iraqi_Jew:1430             0.35
    Georgian:43                0.25
    Lezgin:40                  0.10
    Turkish_Trabzon:21575      0.10
    Druze:HGDP00559            0.05
    Italian_North:HGDP01147    0.05
    Basque:HGDP01360           0.05
    Iraqi_Jew:1417             0.05
    Khomani:SA1004             0.00
    Yukagir:009                0.00
    Chukchi:MC19               0.00
    Nganasan:005               0.00
    Baloochi:HGDP00056         0.00
    Hazara:HGDP00099           0.00
    Makrani:HGDP00134          0.00
    Burusho:HGDP00412          0.00
    French:HGDP00524           0.00
    Papuan:HGDP00545           0.00
    BedouinA:HGDP00609         0.00
    Palestinian:HGDP00677      0.00
    Cambodian:HGDP00713        0.00
    Japanese:HGDP00751         0.00
    Han:HGDP00781              0.00
    Orcadian:HGDP00796         0.00
    Russian:HGDP00879          0.00
    Mandenka:HGDP00904         0.00
    Yoruba:HGDP00925           0.00
    Yakut:HGDP00954            0.00
    BantuSA:HGDP00993          0.00
    Yi:HGDP01183               0.00
    Miao:HGDP01195             0.00
    Mongola:HGDP01225          0.00
    Hezhen:HGDP01237           0.00
    Mozabite:HGDP01272         0.00
    Uygur:HGDP01299            0.00
    BantuKenya:HGDP01405       0.00
    Somali:21S                 0.00
    Kikuyu:47K                 0.00
    Australian:IHW9118         0.00
    Masai:103M                 0.00
    Saami:SD60                 0.00
    Bulgarian:A4               0.00
    Lithuanian:F1              0.00
    Lebanese:5                 0.00
    Jordanian:214              0.00
    Jordanian:445              0.00
    Jordanian:62               0.00
    Jordanian:603              0.00
    Jordanian:307              0.00
    Jordanian:503              0.00
    Jordanian:646              0.00
    Jordanian:384              0.00
    Hungarian:6                0.00
    Saudi:A5                   0.00
    Saudi:A7                   0.00
    Saudi:1434                 0.00
    Saudi:1424                 0.00
    Saudi:A9                   0.00
    Saudi:A1                   0.00
    Yemeni:3                   0.00
    Egyptian:7                 0.00
    Syrian:461                 0.00
    Balkar:124                 0.00
    Nogai:42                   0.00
    North_Ossetian:19          0.00
    Chechen:126                0.00
    Kumyk:44                   0.00
    Kalmyk:9                   0.00
    Altaian:363p               0.00
    Belarusian:43s             0.00
    Ukrainian:Lv240            0.00
    Estonian:393               0.00
    Mordovian:27               0.00
    Uzbek:usb25                0.00
    Turkmen:UZB178             0.00
    Tajik:tdj508               0.00
    Icelandic:NA15762          0.00
    Scottish:HG00103           0.00
    Spanish:HG01503            0.00
    Finnish:HG00174            0.00
    Punjabi:HG02687            0.00
    Bengali:HG03007            0.00
    Norwegian:NOR119           0.00
    Croatian:CRO107            0.00
    Sicilian:TP08              0.00
    Ethiopian_Jew:1818         0.00
    Ashkenazi:5782             0.00
    Algerian:43A22             0.00
    Sephardi_Jew:4953          0.00
    Yemenite_Jew:4938          0.00
    Iraqi_Jew:4061             0.00
    Iraqi_Jew:1771             0.00
    Iraqi_Jew:4291             0.00
    Iraqi_Jew:4241             0.00
    Cypriot:CYP5               0.00
    Saharawi:SAH21             0.00
    Turkish_Kayseri:24402      0.00
    Lebanese_Christian:1AQ127  0.00
    Moroccan:MCA9              0.00
    Romanian:G408              0.00
    Saudi:A6                   0.00
    Albanian:191               0.00
    Yemeni:al-Jawf             0.00
    Eritrean                   0.00
    Nogay:42                   0.00
    Syrian:464                 0.00
    Jordanian:543              0.00
    Kurdish:63722              0.00
    Restricted:
    Code:
    [1] "distance%=0.2341 / distance=0.002341"
    
             Moriyek
                             
    Abkhasian:41        21.55
    Pathan:HGDP00213    13.05
    Brahui:HGDP00007    12.45
    Kalash:HGDP00290    12.15
    Armenian:191        11.35
    BedouinB:HGDP00641   9.95
    Sardinian:HGDP00666  8.95
    Adygei:HGDP01387     3.30
    Greek:NA17373        2.25
    Assyrian152          1.95
    English:HG00128      1.60
    Iranian:14           1.45
    I am sure you can also model yourself differently. I uploaded a working nMonte file (K12_nMonte.txt).
    https://drive.google.com/file/d/1L6x...ew?usp=sharing
    Last edited by mephisto; 05-19-2018 at 12:06 PM.

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  7. #125
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    Interesting - the distance for the full table is very low ,with a lot of components. I'm not sure nMonte works well with this calculator.
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  8. #126
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    M13'46'61

    India China Tajikistan Mongolia Russian Federation Papua New Guinea
    Ancestry DNA nMonte 2 results

    All pops

    [1] "1. CLOSEST SINGLE ITEM DISTANCES"
    Bengali:HG03007 Burusho:HGDP00412 Sindhi:HGDP00181 Pathan:HGDP00213
    18.04413 19.42000 27.30948 27.64667
    Kalash:HGDP00290 GujaratiA Uygur:HGDP01299 Uzbek:usb25
    27.64667 33.81528 37.77115 38.70961

    [1] "2. FULL TABLE nMONTE"
    [1] "Ncycles= 1000"
    Papuan Yakut Caucasus W_Africa E_Asia Kalash NW_Europe
    Me 3.930000 4.710000 5.440000 0.360000 18.980000 3.640000 3.500000
    fitted 3.921235 4.789755 5.397895 0.376735 18.998515 2.953955 3.832055
    dif -0.008765 0.079755 -0.042105 0.016735 0.018515 -0.686045 0.332055
    Arabia Mozabite S_Asia Brahui.Baloochi Mediterranean
    Me 0.00000 2.090000 40.060000 17.080000 0.210000
    fitted 0.18736 2.083535 40.066065 17.116075 0.269575
    dif 0.18736 -0.006465 0.006065 0.036075 0.059575
    [1] "distance%=0.7936 / distance=0.007936"


    Me
    Bengali:HG03007 39.25
    Burusho:HGDP00412 21.65
    Punjabi:HG02687 10.65
    Mongola:HGDP01225 7.45
    Han:HGDP00781 6.6
    Brahui:HGDP00007 5.65
    Abkhasian:41 3.15
    Papuan:HGDP00545 1.9
    Mozabite:HGDP01272 1.85
    Australian:IHW9118 0.85
    Cambodian:HGDP00713 0.35
    Jordanian:503 0.2
    Mandenka:HGDP00904 0.1
    BantuKenya:HGDP01405 0.1
    Georgian:43 0.1
    Yoruba:HGDP00925 0.05
    Yi:HGDP01183 0.05
    Miao:HGDP01195 0.05

    [1] "3. RESTRICTED nMONTE"
    [1] "Ncycles= 1000"
    Papuan Yakut Caucasus W_Africa E_Asia Kalash NW_Europe Arabia
    Me 3.93000 4.710000 5.44000 0.360000 18.9800 3.6400 3.500000 0.000000
    fitted 3.96642 4.789495 5.42737 0.123995 19.0186 3.0914 3.779445 0.200335
    dif 0.03642 0.079495 -0.01263 -0.236005 0.0386 -0.5486 0.279445 0.200335
    Mozabite S_Asia Brahui.Baloochi Mediterranean
    Me 2.0900 40.06000 17.08000 0.21000
    fitted 2.1243 40.08264 17.14388 0.24448
    dif 0.0343 0.02264 0.06388 0.03448
    [1] "distance%=0.7008 / distance=0.007008"


    Me
    Bengali:HG03007 52.75
    Burusho:HGDP00412 20.55
    Han:HGDP00781 8.3
    Mongola:HGDP01225 4.05
    Punjabi:HG02687 3.7
    Abkhasian:41 3.5
    Brahui:HGDP00007 3.1
    Papuan:HGDP00545 2.2
    Mozabite:HGDP01272 1.85

    Without Burusho

    [1] "1. CLOSEST SINGLE ITEM DISTANCES"
    Bengali:HG03007 Sindhi:HGDP00181 Pathan:HGDP00213 Kalash:HGDP00290
    18.04413 27.30948 27.64667 27.64667
    GujaratiA Uygur:HGDP01299 Uzbek:usb25 Baloochi:HGDP00056
    33.81528 37.77115 38.70961 39.12427

    [1] "2. FULL TABLE nMONTE"
    [1] "Ncycles= 1000"
    Papuan Yakut Caucasus W_Africa E_Asia Kalash NW_Europe Arabia
    Me 3.93000 4.710000 5.44000 0.360 18.98000 3.640000 3.500000 0.000000
    fitted 3.95937 4.815265 5.45294 0.395 19.02426 2.594915 3.724315 0.262595
    dif 0.02937 0.105265 0.01294 0.035 0.04426 -1.045085 0.224315 0.262595
    Mozabite S_Asia Brahui.Baloochi Mediterranean
    Me 2.090000 40.060000 17.08000 0.210000
    fitted 2.125375 40.089915 17.15352 0.395755
    dif 0.035375 0.029915 0.07352 0.185755
    [1] "distance%=1.1264 / distance=0.011264"


    Me
    Bengali:HG03007 60.35
    Mongola:HGDP01225 7.5
    Han:HGDP00781 5.5
    GujaratiA 4.55
    Abkhasian:41 4.2
    Pathan:HGDP00213 4
    Kalash:HGDP00290 3.5
    Brahui:HGDP00007 3.05
    Tajik:tdj508 2
    Mozabite:HGDP01272 1.8
    Papuan:HGDP00545 1.75
    Australian:IHW9118 0.8
    Punjabi:HG02687 0.4
    Uygur:HGDP01299 0.25
    Yoruba:HGDP00925 0.2
    Sindhi:HGDP00181 0.05
    Cambodian:HGDP00713 0.05
    BantuSA:HGDP00993 0.05

    [1] "3. RESTRICTED nMONTE"
    [1] "Ncycles= 1000"
    Papuan Yakut Caucasus W_Africa E_Asia Kalash NW_Europe Arabia
    Me 3.93000 4.710000 5.440000 0.36000 18.9800 3.64000 3.500000 0.000000
    fitted 3.98404 4.833325 5.488105 0.12724 19.0402 2.62968 3.733505 0.275565
    dif 0.05404 0.123325 0.048105 -0.23276 0.0602 -1.01032 0.233505 0.275565
    Mozabite S_Asia Brahui.Baloochi Mediterranean
    Me 2.090000 40.060000 17.08000 0.2100
    fitted 2.126965 40.118875 17.17483 0.4612
    dif 0.036965 0.058875 0.09483 0.2512
    [1] "distance%=1.143 / distance=0.01143"


    Me
    Bengali:HG03007 62.4
    Mongola:HGDP01225 6.95
    GujaratiA 6.55
    Han:HGDP00781 5.9
    Abkhasian:41 5.3
    Brahui:HGDP00007 3.3
    Tajik:tdj508 3.05
    Papuan:HGDP00545 2.25
    Mozabite:HGDP01272 1.8
    Kalash:HGDP00290 1.35
    Pathan:HGDP00213 1.15

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     mephisto (05-20-2018)

  10. #127
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    Ashkenazi, German, Romani
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    T2B25

    Anyone able to run the nMonte for me on this?

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     Hurricane (02-10-2019)

  12. #128
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    Tunisia African Union
    Quote Originally Posted by Hurricane View Post
    Mine

    Papuan 1.25%
    Yakut 0.01%
    Caucasus 5.56%
    W_Africa 61.69%
    E_Asia 0.44%
    Kalash 0.00%
    NW_Europe 2.28%
    Arabia 9.42%
    Mozabite 11.28%
    S_Asia 3.97%
    Brahui-Baloochi 0.03%
    Mediterranean 4.06%
    PEN=0
    [1] "distance%=0.2185"

    Hurricane

    Yoruba,32.2
    Mandenka,10.8
    BantuSA,7.6
    Masai,6.8
    Ethiopian_Jew,6.6
    Moroccan,5.4
    Mozabite,5.2
    Saudi,4.6
    Punjabi,3.6
    BedouinB,2.8
    Jordanian,2.6
    Saharawi,2.6
    Kikuyu,2.2
    Somali,2.2
    Algerian,1.2
    Icelandic,0.8
    Papuan,0.8
    Greek,0.6
    Yemeni,0.6
    French,0.4
    Australian,0.2
    Sardinian,0.2

    PEN=DEF
    [1] "distance%=3.6344"

    Hurricane

    Masai,71.6
    Somali,7
    Ethiopian_Jew,4
    Khomani,3.4
    Eritrean,3
    Kikuyu,2.8
    Saharawi,2
    Algerian,1.2
    Moroccan,0.8
    Tajik,0.6
    Bengali,0.4
    GujaratiA,0.4
    Hungarian,0.4
    Punjabi,0.4
    Albanian,0.2
    Australian,0.2
    Baloochi,0.2
    Burusho,0.2
    Egyptian,0.2
    Iranian,0.2
    Italian_North,0.2
    Kalash,0.2
    Papuan,0.2
    Ukrainian,0.2
    Regions of Ancestry
    West Africa - East Africa - North Africa - Levant - Arabia - Southern Europe - South Asia - Oceania - Northern Europe - Asia East
    Hidden Content -Hidden Content -Hidden Content -Hidden Content -Hidden Content -Hidden Content -Hidden Content -Hidden Content -Hidden Content

  13. #129
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    Turkmenistan Suriname South Africa Costa Rica Norway Australia
    FINAL ADMIXTURE PROPORTIONS:
    ----------------------------

    3.44% Papuan
    0.93% Yakut
    7.36% Caucasus
    1.04% W_Africa
    7.37% E_Asia
    6.01% Kalash
    0.38% NW_Europe
    0.05% Arabia
    0.80% Mozabite
    52.92% S_Asia
    19.71% Brahui-Baloochi
    0.00% Mediterranean


    Penalty 0
    [1] "distance%=4.7408"

    Censored K12

    Bengali,36
    Punjabi,32.6
    Brahui,13.2
    Abkhasian,8
    Han,2.8
    Papuan,2.2
    Saudi,2
    Burusho,1.8
    Mandenka,1
    Mozabite,0.4

    Penalty 0.01:
    [1] "distance%=6.5654"

    Censored K12

    Bengali,68.8
    Sindhi,15.6
    GujaratiA,3.2
    Punjabi,2.4
    Kalash,2
    Pathan,1.6
    Baloochi,1.2
    Burusho,1.2
    Druze,0.4
    Abkhasian,0.2
    Chechen,0.2
    Georgian,0.2
    Iraqi_Jew,0.2
    Jordanian,0.2
    Kumyk,0.2
    Kurdish,0.2
    Lebanese,0.2
    Lebanese_Christian,0.2
    Lezgin,0.2
    Makrani,0.2
    Mandenka,0.2
    Nogai,0.2
    Saudi,0.2
    Sephardi_Jew,0.2
    Yemeni,0.2
    Yemenite_Jew,0.2
    Yoruba,0.2

    It looks like it needs more southern south Asian populations.

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     Hurricane (02-10-2019)

  15. #130
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    İstanbul
    Ethnicity
    Mixed
    Nationality
    Turkish

    Turkey Canada Albania
    0.15% Papuan
    3.83% Yakut
    19.91% Caucasus
    0.00% W_Africa
    0.65% E_Asia
    2.63% Kalash
    30.51% NW_Europe
    7.01% Arabia
    3.66% Mozabite
    1.77% S_Asia
    6.76% Brahui-Baloochi
    23.13% Mediterranean

    0 penalty:
    [1] "distance%=0.2071"

    zuzu

    Italian_North,12
    Estonian,11.8
    Iraqi_Jew,9.6
    Saudi,7.8
    Ashkenazi,6.8
    Assyrian152,6.8
    Greek,6.2
    Sardinian,6
    Lebanese_Christian,5.4
    Czech,3.8
    Hungarian,3
    Cypriot,2.8
    Yakut,2.4
    Albanian,2.2
    Basque,2
    Tajik,2
    Turkish_Trabzon,1.8
    Brahui,1.6
    Mordovian,1.4
    Abkhasian,0.6
    Adygei,0.6
    Bulgarian,0.6
    Iranian,0.6
    Nogay,0.6
    Chukchi,0.4
    Nganasan,0.4
    Saami,0.2
    Turkmen,0.2
    Uygur,0.2
    Yemenite_Jew,0.2


    .01 penalty:
    [1] "distance%=3.6387"

    zuzu

    Ashkenazi,49.4
    Albanian,9.4
    Greek,8.8
    Bulgarian,4.6
    Iraqi_Jew,2
    Cypriot,1.6
    Estonian,1.6
    Italian_North,1.6
    Turkish_Kayseri,1.6
    Romanian,1.4
    Spanish,1.2
    Sardinian,1
    Basque,0.8
    Czech,0.8
    English,0.8
    Palestinian,0.8
    Syrian,0.8
    Assyrian152,0.6
    French,0.6
    Hezhen,0.6
    Hungarian,0.6
    Uzbek,0.6
    Yukagir,0.6
    Adygei,0.4
    Brahui,0.4
    Croatian,0.4
    Druze,0.4
    Iranian,0.4
    Kalash,0.4
    Kurdish,0.4
    Lithuanian,0.4
    Pathan,0.4
    Russian,0.4
    Scottish,0.4
    Baloochi,0.2
    BedouinB,0.2
    Belarusian,0.2
    Chukchi,0.2
    GujaratiA,0.2
    Jordanian,0.2
    Kalmyk,0.2
    Kumyk,0.2
    Lebanese_Christian,0.2
    Makrani,0.2
    Nogai,0.2
    Nogay,0.2
    Papuan,0.2
    Saami,0.2
    Tajik,0.2
    Turkish_Trabzon,0.2
    Turkmen,0.2
    Ukrainian,0.2
    Yakut,0.2

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