Eurogenes EUtest 3D & 2D PCA

**Lemgrant** · 11-21-2019, 10:22 PM

Originally Posted by LePrieur

Using 1 population approximation:
1 NL @ 5.360508
2 English @ 5.642265
3 DK @ 6.438132
4 Cornish @ 6.909125
5 West_&_Central_German @ 7.005866
6 Orcadian @ 7.982291
7 NO @ 8.247042
8 IE @ 8.595057
9 South_&_Central_Swedish @ 9.035830
10 Scottish @ 10.340495
11 FR @ 12.453335
12 North_Swedish @ 13.026841
13 AT @ 14.265373
14 HU @ 19.990417
15 PT @ 20.254925
16 ES @ 20.849253
17 South_Finnish @ 22.171810
18 Serbian @ 23.137617
19 North_Italian @ 25.388145
20 PL @ 25.592957

Using 2 populations approximation:
1 50% FR +50% NO @ 5.280873

Using 3 populations approximation:
1 50% DK +25% DK +25% FR @ 4.698812

Using 4 populations approximation:
+++++++++++++++++++++++++++++++++++++++
1 DK + English + FR + NO @ 4.690612
2 DK + DK + DK + FR @ 4.698812
3 DK + DK + FR + NO @ 4.709173
4 DK + English + FR + South_&_Central_Swedish @ 4.713714
5 English + FR + NO + NO @ 4.730468
6 DK + FR + NL + NO @ 4.745772
7 DK + DK + FR + South_&_Central_Swedish @ 4.764232
8 DK + ES + NO + NO @ 4.772079
9 DK + ES + NO + South_&_Central_Swedish @ 4.795853
10 English + FR + NO + South_&_Central_Swedish @ 4.802351
11 DK + NO + NO + PT @ 4.802359
12 ES + NO + NO + NO @ 4.805685
13 DK + DK + FR + NL @ 4.811207
14 DK + FR + NL + South_&_Central_Swedish @ 4.814058
15 DK + DK + English + FR @ 4.817941
16 FR + NL + NO + NO @ 4.845960
17 DK + NO + PT + South_&_Central_Swedish @ 4.869868
18 DK + ES + South_&_Central_Swedish + South_&_Central_Swedish @ 4.870558
19 NO + NO + NO + PT @ 4.871549
20 ES + NO + NO + South_&_Central_Swedish @ 4.877505

Code:

#	Population	Percent
1	NORTH-CENTRAL_EURO	29.21
2	ATLANTIC	24.43
3	WEST_MED	13.7
4	SOUTH_BALTIC	12.46
5	EAST_EURO	11.36
6	SOUTH_ASIAN	3.37
7	EAST_MED	2.08
8	WEST_ASIAN	2.02
9	SIBERIAN	1.27
10	EAST_AFRICAN	0.09

Single Population Sharing:

#	Population (source)	Distance
1	NL	4.89
2	English	5.16
3	DK	5.89
4	Cornish	6.19
5	West_&_Central_German	6.28
6	Orcadian	7.2
7	NO	7.45
8	IE	7.68
9	South_&_Central_Swedish	8.2
10	Scottish	9.24
11	FR	10.96
12	North_Swedish	11.69
13	AT	12.46
14	HU	17.55
15	PT	17.83
16	ES	18.39
17	South_Finnish	19.91
18	Serbian	19.99
19	North_Italian	21.99
20	PL	22.81

Mixed Mode Population Sharing:

#	 	Primary Population (source)	Secondary Population (source)	Distance
1	 	91.4%	DK	+	8.6%	Sardinian	@	3.77
2	 	96.3%	English	+	3.7%	South_Indian	@	3.99
3	 	95.7%	English	+	4.3%	Bangladeshi	@	4.15
4	 	96%	English	+	4%	Gujarati	@	4.23
5	 	95.9%	English	+	4.1%	IN	@	4.26
6	 	88.7%	NO	+	11.3%	Sardinian	@	4.27
7	 	97.3%	NL	+	2.7%	South_Indian	@	4.28
8	 	71.4%	DK	+	28.6%	FR	@	4.3
9	 	62.4%	NO	+	37.6%	FR	@	4.32
10	 	74.8%	NO	+	25.2%	ES	@	4.4
11	 	82.1%	DK	+	17.9%	ES	@	4.43
12	 	81.7%	DK	+	18.3%	PT	@	4.45
13	 	97.2%	NL	+	2.8%	Bangladeshi	@	4.46
14	 	74.3%	NO	+	25.7%	PT	@	4.47
15	 	97.4%	NL	+	2.6%	Gujarati	@	4.52
16	 	97.4%	NL	+	2.6%	IN	@	4.55
17	 	95.8%	English	+	4.2%	Burusho	@	4.56
18	 	96.2%	English	+	3.8%	Sindhi	@	4.56
19	 	59.4%	South_&_Central_Swedish	+	40.6%	FR	@	4.59
20	 	96.9%	NL	+	3.1%	Sardinian	@	4.64

the 3D version of PCA appears to be sensitive to your 3.37% south Asian and 1.27% Siberian score, and shifts you away from English. In 2D pca there are no South Asian populations, so that component score doesn't matter.

**Rædwald** · 11-21-2019, 10:47 PM

Originally Posted by Lemgrant

the 3D version of PCA appears to be sensitive to your 3.37% south Asian and 1.27% Siberian score, and shifts you away from English. In 2D pca there are no South Asian populations, so that component score doesn't matter.

Do you mean the score of the 2D PCA? or the South Asian/Siberian? I have minor Amerindian 2-3% So this calc probably represents it as such.

**Lemgrant** · 11-21-2019, 10:54 PM

Originally Posted by LePrieur

Do you mean the score of the 2D PCA? or the South Asian/Siberian? I have minor Amerindian 2-3% So this calc probably represents it as such.

I mean that your South Asian/Siberian score doesn't affect your positioning on 2d pca, because there are no south Asian populations. But it does on 3d pca.
Yes, south Asian can be Amerindian proxy in this calculator it seems.