SouthDutch7991
01-20-2023, 01:06 PM
There is something wrong about this plot. The WHG should not be plotting among modern europeans.
Typically it shouldn't, but in 2D they will overlap. Weirdly, adding modern melanesians will collapse the 3rd dimension of WHG completely, to the point it plots between Yamnaya and Anatolian samples.
Try seeing what happens when you add/remove Papun from this in the 3-dimensional PCA. Does anyone know what causes this?
https://imgur.com/Ay1hWPE.png
TUR_Barcin_N,0.1175998,0.180118,0.0035312,-0.101158,0.0510443,-0.0483875,-0.0043582,-0.0069334,0.0362287,0.0807473,0.0079718,0.0118803,-0.0234545,0.0004691,-0.0419807,-0.0101913,0.0233091,0.0019866,0.0136954,-0.0097489,-0.0142249,0.0057723,-0.0041232,-0.0031658,-0.0043437
TUR_Tepecik_Ciftlik_N,0.108701,0.1731478,-0.0143308,-0.100534,0.0270818,-0.0402298,-0.0045828,-0.005019,0.02623,0.05745,0.008444,0.0080555,-0.0101832,0.0052298,-0.0352192,-0.0104748,0.0088662,0.0004432,0.005342,-0.0032828,0.0026827,0.0044515,-0.0071795,-0.0038258,-0.0045805
BRA_LapaDoSanto_9600BP,0.050765,-0.3095332,0.1206032,0.098515,-0.1156522,-0.017626,-0.284645,-0.3400012,-0.0136212,-0.0184422,0.002241,-0.003267,0.0004162,0.017478,-0.0065688,0.0064438,0.006493,-0.001267,0.0026898,0.003727,-0.0010482,0.007963,-0.002662,-0.0043378,0.001413
Dinka,-0.577083,0.0507765,-0.0003773,-0.0075098,-0.0053855,-0.0016735,-0.0176848,0.0204222,0.081145,-0.0969495,-0.02107,0.022742,-0.0383172,-0.0011698,0.0101452,-0.021347,0.0186125,-0.0094382,0.0241968,-0.0241678,0.002402,0.003308,0.001479,0.0009038,0.0 096995
ETH_4500BP,-0.511066,0.043668,0.000754,0.000969,-0.00277,-0.011435,0.050997,-0.045229,0.089172,-0.087838,-0.012991,-0.002997,-0.031219,0.000688,0.02158,-0.029965,0.027772,0.039273,0.00176,-0.009004,0.000374,0.006183,-0.003451,-0.00241,-0.000838
Gambian,-0.6064875,0.0671942,0.0197362,0.0114665,0.0021028, 0.0055777,-0.0358392,0.0387677,-0.0317353,0.0241463,0.0054132,-0.0036467,0.0162287,-0.0009865,0.011016,-0.0153362,0.009692,-0.0011823,-0.002116,-0.0032307,-0.001643,-0.0018137,0.0043958,-0.0001005,0.001377
Han,0.0206952,-0.4507105,-0.0082967,-0.0651579,0.0780846,0.0374475,0.0029055,-0.004804,-0.0150232,-0.0031146,-0.0495875,-0.0070573,0.0072707,-0.0081072,-0.0043305,0.0012535,0.0017542,-0.0008638,-0.0020455,-0.0102206,0.0122397,0.0069582,0.0141063,-0.0012925,-0.0022315
IRN_Ganj_Dareh_N,0.0430252,0.0664158,-0.1550722,0.0047158,-0.122669,0.0235384,0.017109,-0.0011998,-0.082546,-0.0544158,-0.0028258,-0.0016186,0.0044896,-0.0062756,0.0316498,0.0561384,-0.0054242,0.0068664,0.0136508,-0.0334162,0.00856,-0.028836,-0.0110678,-0.039331,0.0222254
IRN_Shahr_I_Sokhta_BA2_I8728,0.033009,-0.081242,-0.184789,0.125325,-0.09848,0.06777,0.002585,0.007615,0.03661,0.02606,-0.002273,0.010041,-0.005798,0.006744,0.004479,0.001326,0.008605,0.001 267,0.00352,0.001376,0.003743,-0.004946,-0.00037,-0.00253,-0.007305
Jarawa,-0.0219821,-0.2430289,-0.1324164,0.0986968,0.0323713,-0.0045841,-0.01012,0.0065044,0.0546974,0.0238044,0.0228054,0. 0027349,-0.0041532,0.0103562,-0.0108067,-0.0114441,0.0094529,-0.0019082,-0.0062221,0.0286778,-0.0046401,0.0111366,-0.0123402,0.0022668,0.0049844
Kura-Araxes_ARM_Kaps,0.1013025,0.133034,-0.07071,-0.043605,-0.0498555,-0.0092035,0.008108,-0.011653,-0.066368,-0.01631,0.0030855,0.011015,-0.019846,0.005849,0.0042075,-0.0102095,-0.0001305,-0.003927,-0.001697,0.0032515,0.003494,-0.000247,-0.0036975,-0.0090975,-0.0030535
Levant_PPNB,0.072847,0.1639064,-0.0316026,-0.1361132,0.0332986,-0.0645352,-0.0134426,-0.0147684,0.0741604,0.03601,0.0188046,-0.0150764,0.035738,0.0025596,-0.0217696,0.006099,0.0098048,-0.0013176,-0.0047264,0.0188088,-0.001797,0.0071472,0.0008872,-0.0056874,-0.0037602
MAR_Taforalt,-0.189857,0.0814452,-0.0242866,-0.085595,0.027636,-0.0552202,-0.0705968,0.0184146,0.155397,0.003499,0.0209156,-0.0318316,0.0747168,-0.0513334,0.0711988,-0.0363032,0.0052676,-0.066106,-0.1424162,0.0389938,-0.0376836,-0.1255322,0.0730118,-0.0137606,0.0164534
Nganassan,0.0476917,-0.4066181,0.1557885,0.0023902,-0.1594452,-0.0882129,0.0285066,0.0433367,0.0310876,0.0128477, 0.1028569,0.0094115,-0.0040734,-0.0261619,-0.0219731,-0.0123307,-0.0010952,0.0134165,0.0268365,-0.0008505,0.0431363,-0.0118954,0.0336096,0.0003977,0.0135556
WHG,0.1246365,0.116278,0.184789,0.189279,0.1546445 ,0.0464355,0.0131605,0.0372675,0.0890705,0.017768,-0.0153455,-0.015811,0.0159065,-0.0030275,0.053338,0.0582065,0.00502,0.016343,-0.0093015,0.055589,0.0944585,0.0111905,-0.049607,-0.160866,0.0170045
Yamnaya_RUS_Samara,0.1255849,0.089028,0.0426986,0. 1153479,-0.0287232,0.0450564,0.0036033,-0.0025642,-0.0559032,-0.0728943,0.0018222,3.32e-05,-0.0026924,-0.0233041,0.0366141,0.0157633,-0.0012316,-0.0017879,-0.0038408,0.0137704,-0.0031749,0.0007557,0.0110649,0.0186102,-0.004537
Yoruba,-0.6300625,0.0625011,0.022113,0.0167079,0.0005035,0 .0124741,-0.044417,0.0477673,-0.0488813,0.0327694,0.0046205,0.0007904,0.0230561, 0.0009509,0.0125232,-0.0096067,0.0070763,0.0004491,0.006022,-0.00299,0.0015542,0.0023156,-0.0017592,-0.0004711,-0.0004246
Papuan,-0.0459844,-0.2410866,-0.2637584,0.3092414,0.2069308,-0.509589,-0.001974,0.0070152,-0.041273,-0.0119546,-0.018902,0.000869,0.0013974,-0.00311,0.0001628,-0.0003186,-0.0021906,-0.0018498,-0.001081,-0.0015256,0.0023458,0.0018052,0.0012324,0.0018314, 0.0016048
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